Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1962
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 152631
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:4717 original size:60 final size:59
Alignment explanation
Indices: 4417--4724 Score: 372
Period size: 55 Copynumber: 5.3 Consensus size: 59
4407 TCCACTTTTC
* * *
4417 AGTCCTCAAAGAGTAGGATGCCTTTTCCTTTCAAAGCCCACATGAGTTGGTGGCACTT-G
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTT-AAAGCCCACACGAGTTGGTGGCACTTCT
* *
4476 AGTTCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCCACACAAGTTGGTGGCACCTT-T
1 AGTCCTCAAAGAGCAGGATGCCTTTTCC-TTTAAAG-CCCACACGAGTTGGTGGCA-CTTCT
*
4537 AGTCCTCAAAGAGCAGGATGCC-TTT-C---AAAGCCCACACGAGTTGGTGGCATTTTCT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTAAAGCCCACACGAGTTGGTGGCA-CTTCT
* *
4592 TGTCCTCAAAGAGCAGGACGCC-TTT-C---AAAGCCCACACGAGTTGGTGGCACTTCT
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTAAAGCCCACACGAGTTGGTGGCACTTCT
4646 CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACAC-AGTTGGTGGCACCTTCT
1 -AGTCCTCAAAGAGCAGGATGCCTTTTCC-TTTAAAGCCCACACGAGTTGGTGGCA-CTTCT
*
4707 AGTCCTCAAAGAGTAGGA
1 AGTCCTCAAAGAGCAGGA
4725 CGCACTTTAT
Statistics
Matches: 222, Mismatches: 15, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
54 24 0.11
55 72 0.32
56 3 0.01
57 1 0.00
59 31 0.14
60 51 0.23
61 40 0.18
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTAAAGCCCACACGAGTTGGTGGCACTTCT
Found at i:4796 original size:43 final size:42
Alignment explanation
Indices: 4708--4926 Score: 204
Period size: 43 Copynumber: 5.2 Consensus size: 42
4698 GCACCTTCTA
*
4708 GTCCTCAAAGAGTAGGACGCACTTTATTTTCC---TCT--TTT
1 GTCCTCAAAGAGCAGGACGCA-TTTATTTTCCTTTTCTCCTTT
* *
4746 ATCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTT-ATTTTCCTTTTCTCCTTT
*
4789 GTCCTCAAAGAGCAGGACGCTCTTTA-TTTCCTTCTT-TCCCTCTT
1 GTCCTCAAAGAGCAGGACGC-ATTTATTTTCCTT-TTCT-CCT-TT
* *
4833 AGTCCTCAAAGAG-AGTACGCACTTTATTTTCCTTTTC-CTTTT
1 -GTCCTCAAAGAGCAGGACGCA-TTTATTTTCCTTTTCTCCTTT
* * * *
4875 GTCCTCAGAGAGCAGGACGTATTTCATTTCCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTT-ATTTTCCTTTTCTCCTTT
4918 GTCCTCAAA
1 GTCCTCAAA
4927 AAATGGGACG
Statistics
Matches: 148, Mismatches: 16, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
37 3 0.02
38 25 0.17
41 17 0.11
42 26 0.18
43 41 0.28
44 17 0.11
45 19 0.13
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCATTTATTTTCCTTTTCTCCTTT
Found at i:4890 original size:86 final size:86
Alignment explanation
Indices: 4747--4926 Score: 226
Period size: 86 Copynumber: 2.1 Consensus size: 86
4737 TCCTCTTTTA
* *
4747 TCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGCTCT
1 TCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACG-TAT
4812 TT-ATTT-CCTTCTTTCCCTCTTAG
65 TTCATTTCCCTT-TTTCCCT-TT-G
* * *
4835 TCCTCAAAGAG-AGTACGCACTTT-ATTTTCCTTTTC-CTTTTGTCCTCAGAGAGCAGGACGTAT
1 TCCTCAAAGAGCAGGACGCA-TTTCATTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGTAT
*
4897 TTCATTTCCCTTTTTTCCTTTG
65 TTCATTTCCCTTTTTCCCTTTG
4919 TCCTCAAA
1 TCCTCAAA
4927 AAATGGGACG
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
84 9 0.11
85 6 0.07
86 32 0.39
87 22 0.27
88 14 0.17
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (86 bp):
TCCTCAAAGAGCAGGACGCATTTCATTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACGTATT
TCATTTCCCTTTTTCCCTTTG
Found at i:5702 original size:13 final size:13
Alignment explanation
Indices: 5684--5733 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
5674 ACATAAGTTT
5684 TGTATCGATACAA
1 TGTATCGATACAA
5697 TGTATCGATACATAA
1 TGTATCGATAC--AA
5712 GTTGTATCGATACAA
1 --TGTATCGATACAA
*
5727 AGTATCG
1 TGTATCG
5734 CTACGAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 17 0.53
15 4 0.12
17 11 0.34
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5719 original size:17 final size:16
Alignment explanation
Indices: 5665--5729 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 16
5655 ATTCAGTAAA
5665 TGTATCGATACATAAGTTT
1 TGTATCGATACA-AAG--T
5684 TGTATCGATAC-AA--
1 TGTATCGATACAAAGT
5697 TGTATCGATACATAAGT
1 TGTATCGATACA-AAGT
5714 TGTATCGATACAAAGT
1 TGTATCGATACAAAGT
5730 ATCGCTACGA
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
16 4 0.10
17 14 0.33
19 11 0.26
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (16 bp):
TGTATCGATACAAAGT
Found at i:5719 original size:30 final size:31
Alignment explanation
Indices: 5663--5733 Score: 117
Period size: 30 Copynumber: 2.3 Consensus size: 31
5653 ACATTCAGTA
5663 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAG-TTTGTATCGATAC
5695 AATGTATCGATACATAAG-TTGTATCGATAC
1 AATGTATCGATACATAAGTTTGTATCGATAC
*
5725 AAAGTATCG
1 AATGTATCG
5734 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 20 0.53
32 18 0.47
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (31 bp):
AATGTATCGATACATAAGTTTGTATCGATAC
Found at i:8421 original size:51 final size:51
Alignment explanation
Indices: 8275--8422 Score: 142
Period size: 52 Copynumber: 2.9 Consensus size: 51
8265 TTGCCTCCGA
* * * *
8275 GGGGATACTCCAA-CCCGGCTTTATTTCCAAAATATCAAATGTTT-CATAATTC
1 GGGGATACTTCAACCCCGG-TTTATTTTCAAAACA-CAAAT-TTTCCACAATTC
* * *
8327 GGGGATACTTCAACCCTGGTTTA-TCTCTAAAACACTAATTTTTCCACAATT-
1 GGGGATACTTCAACCCCGGTTTATTTTC-AAAACAC-AAATTTTCCACAATTC
*
8378 GGGGATACTTCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC
1 GGGGATACTTCAACCCCGG-TTTATTTTCAAAACACAAATTTTCC
8423 TTTCATCGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 13
0.77 0.11 0.13
Matches are distributed among these distances:
51 31 0.39
52 41 0.52
53 7 0.09
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTTCAACCCCGGTTTATTTTCAAAACACAAATTTTCCACAATTC
Found at i:8738 original size:156 final size:157
Alignment explanation
Indices: 8423--8760 Score: 531
Period size: 156 Copynumber: 2.2 Consensus size: 157
8413 CCAATTTTCC
* *
8423 TTTCATCGGGGATACTCCAACTCTGTTATTTCCGAGGGGATACTCCAACACCCGGTTTTATTTCT
1 TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACACCCGGTTTTATTTCT
8488 AAAATATTAATTTCTCATAATCGGGGATACTACCAACCCCGTTACTTCCGAGGAGATACTCCAAT
66 AAAATATTAATTTCTCATAATCGGGGATACTACCAACCCCGTTACTTCCGAGGAGATACTCCAAT
* *
8553 CCTGATTTTATTTCTAAAACATTAATT
131 CCCGATTTTATTTCTAAAACATGAATT
*
8580 TTTCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAAC-CCCGGTTTTATTTCT
1 TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACACCCGGTTTTATTTCT
* * * *
8644 AAAATATTAACTTT-TGATAATCGGGGATACT-CCAACCCTGTTACTTCTGAGGGGATACTCCAA
66 AAAATATTAA-TTTCTCATAATCGGGGATACTACCAACCCCGTTACTTCCGAGGAGATACTCCAA
*
8707 TCCCGA-TTTATTTCTAAACACATCGATTT
130 TCCCGATTTTATTTCTAAA-ACAT-GAATT
8736 TTTCATCGGGGATACTCCAACCCCG
1 TTTCATCGGGGATACTCCAACCCCG
8761 GCTTTATTTC
Statistics
Matches: 168, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
154 12 0.07
155 38 0.23
156 69 0.41
157 49 0.29
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (157 bp):
TTTCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACACCCGGTTTTATTTCT
AAAATATTAATTTCTCATAATCGGGGATACTACCAACCCCGTTACTTCCGAGGAGATACTCCAAT
CCCGATTTTATTTCTAAAACATGAATT
Found at i:8809 original size:52 final size:50
Alignment explanation
Indices: 8740--8861 Score: 140
Period size: 52 Copynumber: 2.4 Consensus size: 50
8730 CGATTTTTTC
* * *
8740 ATCGGGGATACTCCAACCCCGGCTTTATTTCCCAAA-ATGTTGATTTCTCACA
1 ATCGGGGATACTTCAACCCCGACCTTATTT-CCAAATATG--GATTTCTCACA
* *
8792 ATCGGGGATACTTCAACCCCGACCTTATTTCTAAATATGGATTTCTCATA
1 ATCGGGGATACTTCAACCCCGACCTTATTTCCAAATATGGATTTCTCACA
*
8842 ATCAGGGATAC-TCTAACCCC
1 ATCGGGGATACTTC-AACCCC
8862 ATTATTTTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
49 2 0.03
50 26 0.42
51 4 0.06
52 30 0.48
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (50 bp):
ATCGGGGATACTTCAACCCCGACCTTATTTCCAAATATGGATTTCTCACA
Found at i:8860 original size:50 final size:51
Alignment explanation
Indices: 8744--8861 Score: 134
Period size: 50 Copynumber: 2.3 Consensus size: 51
8734 TTTTTCATCG
* * * *
8744 GGGATACTCCAACCCCGGCTTTATTTCCCAAAATGTTGATTTCTCACAATCG
1 GGGATACTCTAACCCCGACCTTATTTCCCAAAATG-TGATTTCTCACAATCA
* *
8796 GGGATACT-TCAACCCCGACCTTATTT-CTAAATATG-GATTTCTCATAATCA
1 GGGATACTCT-AACCCCGACCTTATTTCCCAAA-ATGTGATTTCTCACAATCA
8846 GGGATACTCTAACCCC
1 GGGATACTCTAACCCC
8862 ATTATTTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
50 27 0.47
51 5 0.09
52 25 0.44
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (51 bp):
GGGATACTCTAACCCCGACCTTATTTCCCAAAATGTGATTTCTCACAATCA
Found at i:10245 original size:22 final size:22
Alignment explanation
Indices: 10220--10261 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10210 GAGGAGTGAA
10220 ATTCCTAAAAATTAGGAATCTG
1 ATTCCTAAAAATTAGGAATCTG
*
10242 ATTCCTAAAATTTAGGAATC
1 ATTCCTAAAAATTAGGAATC
10262 AATTATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (22 bp):
ATTCCTAAAAATTAGGAATCTG
Found at i:16568 original size:20 final size:20
Alignment explanation
Indices: 16525--16598 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
16515 TGGGTGGTTT
***
16525 TGTATCGATACATTTCAGGCA
1 TGTATCGATACA-TTCACTAA
*
16546 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTAA
*
16566 TGTATTGATACATTCACTAA
1 TGTATCGATACATTCACTAA
*
16586 TTGTATCAATACA
1 -TGTATCGATACA
16599 AATCATAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 23 0.51
21 22 0.49
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTAA
Found at i:19744 original size:28 final size:28
Alignment explanation
Indices: 19713--19767 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
19703 ACCCCCTCAA
*
19713 AAATAAC-AGGGTTGGAGTATCCCCAATG
1 AAATAACTA-GGTTAGAGTATCCCCAATG
19741 AAATAACTAGGTTAGAGTATCCCCAAT
1 AAATAACTAGGTTAGAGTATCCCCAAT
19768 TATGAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (28 bp):
AAATAACTAGGTTAGAGTATCCCCAATG
Found at i:19812 original size:80 final size:79
Alignment explanation
Indices: 19722--19875 Score: 213
Period size: 79 Copynumber: 1.9 Consensus size: 79
19712 AAAATAACAG
19722 GGTTGGAGTATCCC-CAATGAAATAACT-AGGTTAGAGTATCCCCAATTATGAAAAATTGGTGTT
1 GGTTGGAGTATCCCTCAA--AAATAA-TGAGGTTAGAGTATCCCCAATTATGAAAAATTGGTGTT
*
19785 TTAGAAATAAAAACCGA
63 TTAAAAATAAAAACCGA
* * * * *
19802 GGTTGGAGTATCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTA
1 GGTTGGAGTATCCCTCAAAAATAATGAGGTTAGAGTATCCCCAATTATGAAAAATTGGTGTTTTA
19867 AAAATAAAA
66 AAAATAAAA
19876 TTGTGGTTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.02
79 49 0.74
80 14 0.21
81 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCCCTCAAAAATAATGAGGTTAGAGTATCCCCAATTATGAAAAATTGGTGTTTTA
AAAATAAAAACCGA
Found at i:19817 original size:107 final size:106
Alignment explanation
Indices: 19614--19843 Score: 277
Period size: 107 Copynumber: 2.2 Consensus size: 106
19604 AATAAAATCG
* *
19614 GGGTTGGAGTATCCCCTTAAAAATAACGTGGTTAGACTATCCCCGATTGTGAAAAATCAGTGTTT
1 GGGTTGGAGTATCCCC-TAAAAATAACGTGGTTAGACTATCCCCAATTATGAAAAATCAGTGTTT
* ** *
19679 TGGAAATAAAATTGGGGTTGGAGTACCCCCTCAAAAATAACA
65 TAGAAATAAAACCGAGGTTGGAGTACCCCCTCAAAAATAACA
* **
19721 GGGTTGGAGTATCCCC-AATGAAATAAC-TAGGTTAGAGTATCCCCAATTATGAAAAATTGGTGT
1 GGGTTGGAGTATCCCCTAA--AAATAACGT-GGTTAGACTATCCCCAATTATGAAAAATCAGTGT
* * **
19784 TTTAGAAATAAAAACCGAGGTTGGAGTA-TCCCTCGAAAATAATG
63 TTTAGAAAT-AAAACCGAGGTTGGAGTACCCCCTCAAAAATAACA
19828 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
19844 GATTGTGAAA
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
105 2 0.02
106 1 0.01
107 88 0.83
108 15 0.14
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (106 bp):
GGGTTGGAGTATCCCCTAAAAATAACGTGGTTAGACTATCCCCAATTATGAAAAATCAGTGTTTT
AGAAATAAAACCGAGGTTGGAGTACCCCCTCAAAAATAACA
Found at i:19917 original size:51 final size:51
Alignment explanation
Indices: 19829--19925 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
19819 AAAATAATGG
* * *** *
19829 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAAAAATAAAATTGT
1 GGTTGAAGTATCCCAGATTGTGAAAAATCAATATTTTAAAAATAAAATTGT
* *
19880 GGTTGAAGTATCCCAGATTGTGAGAAATCAATATTTTAGAAATAAA
1 GGTTGAAGTATCCCAGATTGTGAAAAATCAATATTTTAAAAATAAA
19926 GCCGGGGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (51 bp):
GGTTGAAGTATCCCAGATTGTGAAAAATCAATATTTTAAAAATAAAATTGT
Found at i:20014 original size:130 final size:130
Alignment explanation
Indices: 19783--20022 Score: 313
Period size: 130 Copynumber: 1.8 Consensus size: 130
19773 AAAATTGGTG
* * *
19783 TTTTAGAAATAAAAACCGAGGTTGGAGTATCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAAACCGAGGTTGGAGTATCCCTCGAAAATAATAGGATTGGAGTATCCCCGACT
* * * **
19848 GTGAAAAATTGGTGTTTTAAAAATAAAATTGTGGTTGAAGTATCCCAGATTGTGAGAAATCAATA
66 ATGAAAAATTGATGTCTTAAAAATAAAACAGTGGTTGAAGTATCCCAGATTGTGAGAAATCAATA
* * * *
19913 TTTTAGAAAT-AAAGCCGGGGTTGGAGTATCCATTCGGAAATAATAGGATTGGAGTATCCCCGAC
1 TTTTAGAAATAAAAACCGAGGTTGGAGTATCC-CTCGAAAATAATAGGATTGGAGTATCCCCGAC
** *
19977 TATGAAAAATTGATGTCTTGGAAATAAAACCAG-GGTTGGAGTATCC
65 TATGAAAAATTGATGTCTTAAAAATAAAA-CAGTGGTTGAAGTATCC
20023 TTAAGATGAA
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
129 19 0.20
130 73 0.78
131 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (130 bp):
TTTTAGAAATAAAAACCGAGGTTGGAGTATCCCTCGAAAATAATAGGATTGGAGTATCCCCGACT
ATGAAAAATTGATGTCTTAAAAATAAAACAGTGGTTGAAGTATCCCAGATTGTGAGAAATCAATA
Found at i:22402 original size:20 final size:20
Alignment explanation
Indices: 22377--22430 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
22367 GTAAACCTAG
*
22377 AATGTATTGATACAATGAAC
1 AATGTATCGATACAATGAAC
22397 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
22417 AATGTATCGATACA
1 AATGTATCGATACA
22431 TCTGGGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:22480 original size:69 final size:69
Alignment explanation
Indices: 22328--22465 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
22318 AAAATGCCTA
* * * **
22328 AATGGATCGATA-AATTGAAAAATGTATCGATGCATCTAGGTAAACCTAGAATGTATTGATACAA
1 AATGTATCGATACAA-TGAAAAATGTATCGATACATCTAGGTAAACCGAGAATGTATCAATACAA
22392 TGAAC
65 TGAAC
* *
22397 AATGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACCGAGAATGTATCAATACAA
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTAGGT-AAACCGAGAATGTATCAATACAA
22462 TGAA
65 TGAA
22466 AGTGTGTCGT
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
69 34 0.57
70 26 0.43
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (69 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTAAACCGAGAATGTATCAATACAAT
GAAC
Found at i:23163 original size:61 final size:62
Alignment explanation
Indices: 23068--24203 Score: 1324
Period size: 61 Copynumber: 18.7 Consensus size: 62
23058 CTGCCCTTGG
* * * * * *
23068 GGACTAG-AAGGTGCCACCAACTTGTGTTGGCTTTAACAGGAAAAGGCGTCTTCCTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * *
23129 GGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCCTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * * *
23190 GGA-TTGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATCATGCTCCTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * *
23251 GGACT-GAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCCTTAA
1 GGACTAG-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* *
23313 GGA-TTGAAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
1 GGACTAG-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * *
23375 GGATTAGAAAAGTGCCACCAACTTTTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
*
23437 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGCAA-GCATCCTGCTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTGCTCTTTGA
* * ** * *
23499 AGAC-AGAAAGGTATCACCAACTTGTGTGGGCTTTAAAGGGAAAAGGCTTCCTGCTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * **
23560 GGACTAGAAAAGTGCCACCAACCTGTATGGGCTTTGCAAGGAGAAA-GCATCCTGCTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCCTGCTCTTTGA
* * * *
23622 GGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCTACTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * *
23683 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTTCAAGGGGAAA-GCATCCTACTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * * ** *
23745 GGA-TTGGAAAGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGGTGTCCAGCTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * * *
23806 GGACTAGAAAAGTGCCA-C--CTTATATGGGCTTTAGAAGGAAAAGGCGTCCTACTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * *
23865 AGACTAG-AAGGTGCCACCAACTTGTGTGAGG-TTTAAAAGGAAAAGGCGTCTTGCTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTG-GGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* *
23926 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTGCTCCTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
23988 GGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG-AGTCCTGCTGC-TTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA-TCCTGCT-CTTTGA
* * * * *
24049 GGACTA-AAAAGTACCACCAACTTGTATGGGCTTTATAAGGAAAAGGCATTCTACTCTTTGA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
* * * * *
24110 GTACT--AAAGGTGCCACCAGCTTGTATGGGCTTT-----G-AAAGGCATCCTGCT-TTCTAA
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTT-TGA
* *
24164 GGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
24204 CGTCCTACTC
Statistics
Matches: 933, Mismatches: 109, Indels: 67
0.84 0.10 0.06
Matches are distributed among these distances:
53 2 0.00
54 18 0.02
55 22 0.02
56 3 0.00
58 8 0.01
59 42 0.05
60 45 0.05
61 399 0.43
62 378 0.41
63 16 0.02
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (62 bp):
GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGA
Found at i:23310 original size:123 final size:123
Alignment explanation
Indices: 23055--24203 Score: 1358
Period size: 123 Copynumber: 9.4 Consensus size: 123
23045 AATAAAATGG
* * * * * *
23055 GTCCTGC-CCTTGGGGACTAG-AAGGTGCCACCAACTTGTGTTGGCTTTAACAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* *
23118 TTCCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
66 CTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
23176 GTCCTACTCCTTGAGGA-TTGAAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * *
23240 ATGCTCCTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGC
66 CTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
23299 GTCCTGCTCCTTAAGGA-TTGAAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCAT
1 GTCCTGCTCTTTGAGGACTAG-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* * * *
23363 CCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTTTGTGGGCTTTAAAAGAAAAAGGC
65 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* *
23423 ATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGCAA-GCAT
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCAT
* * ** *
23487 CCTGCTCTTTGAAGACAGAAAGGTATCACCAACTTGTGTGGGCTTTAAAGGGAAAAGGC
65 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * **
23546 TTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTATGGGCTTTGCAAGGAGAAA-GCAT
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCAT
* *
23610 CCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGC
65 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
23669 ATCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTTCAAGGGGAAA-GCAT
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGC-TTTAAAAGGAAAAGGCAT
* * * * *
23733 CCTACTCTTTGAGGATTGGAAA-GTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGGT
65 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * * *
23792 GTCCAGCTCTTTGAGGACTAGAAAAGTGCCA-C--CTTATATGGGCTTTAGAAGGAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* *
23854 CTACTCTTTGAAGACT-AGAAGGTGCCACCAACTTGTGTGAGG-TTTAAAAGGAAAAGGC
66 CTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTG-GGCTTTAAAAGGAAAAGGC
*
23912 GTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
* * * *
23977 TTGCTCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGA
66 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * *
24035 GTCCTGCTGC-TTGAGGACTA-AAAAGTACCACCAACTTGTATGGGCTTTATAAGGAAAAGGCAT
1 GTCCTGCT-CTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* * * * *
24098 TCTACTCTTTGAGTACT-AAAGGTGCCACCAGCTTGTATGGGCTTT-----G-AAAGGC
65 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
* * * *
24150 ATCCTGCT-TTCTAAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGG
1 GTCCTGCTCTT-TGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
24204 CGTCCTACTC
Statistics
Matches: 891, Mismatches: 114, Indels: 52
0.84 0.11 0.05
Matches are distributed among these distances:
114 1 0.00
115 44 0.05
116 5 0.01
118 1 0.00
119 11 0.01
120 87 0.10
121 36 0.04
122 114 0.13
123 417 0.47
124 170 0.19
125 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (123 bp):
GTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
Found at i:28994 original size:28 final size:27
Alignment explanation
Indices: 28961--29031 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
28951 ATAAAATCGG
28961 GGTTGGAGTATCTCCTCGA-AAATAACAA
1 GGTTGGAGTATC-CC-CGAGAAATAACAA
**
28989 GGTTGGAGTATCCCCGATGAAATAACGG
1 GGTTGGAGTATCCCCGA-GAAATAACAA
29017 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
29032 AATTGTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 3 0.08
27 2 0.05
28 34 0.87
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGAGAAATAACAA
Found at i:29165 original size:51 final size:51
Alignment explanation
Indices: 29093--29260 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 51
29083 TCAAAAATAA
*
29093 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAT
1 CGGGGTTGAAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAT
* * *
29144 CGGGGTTGAAGTATCCTCGATTGTGAAAAATTGGTGTTTTAGAAGTAAAAT
1 CGGGGTTGAAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAT
* * * * * **
29195 CGGGGTTGGAGTATCCCCGATTAT-AAGAAATAAATATTTTAGAAATAAAGC
1 CGGGGTTGAAGTATCCCCGATTGTGAA-AAATTAGTGTTTTAGAAATAAAAT
29246 CGGGGTT-AGAGTATC
1 CGGGGTTGA-AGTATC
29261 TCCTCGGAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
50 2 0.02
51 98 0.98
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.30
Consensus pattern (51 bp):
CGGGGTTGAAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAT
Found at i:36824 original size:13 final size:13
Alignment explanation
Indices: 36806--36843 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
36796 TTCAACTATT
36806 TGTATCGATACAA
1 TGTATCGATACAA
36819 TGTATCGATACAA
1 TGTATCGATACAA
36832 TGTATCGATACA
1 TGTATCGATACA
36844 TAAGTTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:44883 original size:13 final size:13
Alignment explanation
Indices: 44865--44890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44855 TACACCAAGT
44865 ATGTATCGATACA
1 ATGTATCGATACA
44878 ATGTATCGATACA
1 ATGTATCGATACA
44891 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:44888 original size:32 final size:33
Alignment explanation
Indices: 44847--44910 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
44837 TAGCCAAACT
**
44847 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
44879 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
44911 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:47145 original size:21 final size:21
Alignment explanation
Indices: 47112--47161 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
47102 TTGCAAGTTG
*
47112 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
47134 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
47155 AAATAAA
1 AAATAAA
47162 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:48979 original size:15 final size:15
Alignment explanation
Indices: 48959--48989 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48949 TAAAAATGTC
*
48959 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
48974 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
48989 C
1 C
48990 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:51033 original size:13 final size:13
Alignment explanation
Indices: 51015--51040 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51005 ACATTTTTCT
51015 TTGTATCGATACA
1 TTGTATCGATACA
51028 TTGTATCGATACA
1 TTGTATCGATACA
51041 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:51204 original size:20 final size:20
Alignment explanation
Indices: 51161--51206 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
51151 AAATCTTTTG
51161 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
51182 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
51202 CAAAA
1 CAAAA
51207 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:53599 original size:13 final size:13
Alignment explanation
Indices: 53581--53606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53571 TACACCAAGT
53581 ATGTATCGATACA
1 ATGTATCGATACA
53594 ATGTATCGATACA
1 ATGTATCGATACA
53607 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:53604 original size:32 final size:33
Alignment explanation
Indices: 53563--53626 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
53553 TAGCCAAACT
**
53563 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
53595 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
53627 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:59527 original size:76 final size:76
Alignment explanation
Indices: 59323--59546 Score: 297
Period size: 80 Copynumber: 2.9 Consensus size: 76
59313 TCCCGATGAT
* * * * *
59323 GAAAATTTTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCCTTC-AGAAATAATGGGGTTA
1 GAAAAATTTAATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCGA-AAATAATAGGGTTG
*
59387 AAGTATCCTCGA
65 GAGTATCCTCGA
* *
59399 GATGAACAATTTAATATTTTTGGAAATAAAAATAGGGTTGGAGTATCACCTCGAAAATAATAGGG
1 GA--AA-AATTTAATA-TTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCGAAAATAATAGGG
*
59464 TTGGAGTATCCTTGA
62 TTGGAGTATCCTCGA
* *
59479 GAAAAATTTAATATTTTGGAAATGAAAACAGGGTTGGAGTATCCCCTCGAAAATAATAGAGTTGG
1 GAAAAATTTAATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGG
59544 AGT
66 AGT
59547 GTCCCCAATG
Statistics
Matches: 130, Mismatches: 13, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
76 53 0.41
77 9 0.07
78 4 0.03
79 8 0.06
80 55 0.42
81 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (76 bp):
GAAAAATTTAATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGG
AGTATCCTCGA
Found at i:59597 original size:80 final size:75
Alignment explanation
Indices: 59330--59602 Score: 253
Period size: 80 Copynumber: 3.5 Consensus size: 75
59320 GATGAAAATT
** * * * **
59330 TTAATATTTTGGAAATAAAAACAAGGTTGGAGTATCCCTTC-AGAAATAATGGGGTTAAAGTATC
1 TTAATATTTTGGAAATAAAAA-TGGGTTGGAGTATCCCCTCGA-AAATAATAGAGTTGGAGTATC
* *
59394 CTCGAGATGAACAAT
64 CT-G-GA-GAAAAAA
* *
59409 TTAATATTTTTGGAAATAAAAATAGGGTTGGAGTATCACCTCGAAAATAATAGGGTTGGAGTATC
1 TTAATA-TTTTGGAAATAAAAAT-GGGTTGGAGTATCCCCTCGAAAATAATAGAGTTGGAGTATC
* *
59474 CTTGAGAAAAAT
64 CTGGAGAAAAAA
*
59486 TTAATATTTTGGAAATGAAAACA-GGGTTGGAGTATCCCCTCGAAAATAATAGAGTTGGAGTGTC
1 TTAATATTTTGGAAAT-AAAA-ATGGGTTGGAGTATCCCCTCGAAAATAATAGAGTTGGAGTAT-
*
59550 CCCAATGGTGAAAAAA
63 -CC--TGGAGAAAAAA
* *
59566 TTGATATTTTAGAAATAAAAATGGGATTGGAGTATCC
1 TTAATATTTTGGAAATAAAAATGGG-TTGGAGTATCC
59603 ACTTTTGATG
Statistics
Matches: 166, Mismatches: 17, Indels: 21
0.81 0.08 0.10
Matches are distributed among these distances:
76 47 0.28
77 16 0.10
78 6 0.04
79 13 0.08
80 83 0.50
81 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (75 bp):
TTAATATTTTGGAAATAAAAATGGGTTGGAGTATCCCCTCGAAAATAATAGAGTTGGAGTATCCT
GGAGAAAAAA
Found at i:62095 original size:20 final size:21
Alignment explanation
Indices: 62070--62123 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
62060 CATTTTAGGC
62070 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
*
62090 ATGTATCGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
62111 TTGTATTGATACA
1 ATGTATCGATACA
62124 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:63073 original size:155 final size:154
Alignment explanation
Indices: 62610--63291 Score: 620
Period size: 155 Copynumber: 4.4 Consensus size: 154
62600 AGTGATGACA
* * * * * * *
62610 AGGACTCAGATTTTAAAAAATTACAAAAATAACCTTAAGG-GATATCTTCTACATAAAAGTGCTC
1 AGGACTC-GATTCTAAAAAATTACAAAAATACCCCT-AGGAGATACCTTCGACATAAAAGAGCTT
* *
62674 GATATCCCTAAAGGACTTCAAAAAGATTATAGATGGGATAAACCTATCCTAAATACCCACCTTCA
64 GATAACCCTAAAGGACTT-AAAAAGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTCA
** *
62739 GCATAAAAGCCGACCCGGTGACAACCT
128 GCATAAAAGCAAACCCAGTGACAACCT
* * * ** * * * * * *
62766 AGGACTCAATTTTAGAAAATTATGAAAATGCCCCTTTA-AATAGACCCTCGACATAAAAGTATCT
1 AGGACTCGATTCTAAAAAATTACAAAAATACCCC--TAGGAGATACCTTCGACATAAAAG-AGCT
* * ** * * * *
62830 TGGTAACCTTAGTGGACACTAAAATGATAAGT-AATGGGATGAACCTATCCTAAATACCCACCTT
63 TGATAACCCTAAAGGAC-TTAAAAAGATTA-TAAATGGGATAAACCTATCCTAAATACCCACCTT
** * * *
62894 TGGCATAAAAACAAACCCGGTGACAGCCT
126 CAGCATAAAAGCAAACCCAGTGACAACCT
*
62923 AGGACTCGATTCTAAGAAAATTA-AGAAAATACCCCTAGGAGATACCTTCGACATAAAAGCGCTT
1 AGGACTCGATTCTAA-AAAATTACA-AAAATACCCCTAGGAGATACCTTCGACATAAAAGAGCTT
* * * * * *
62987 GATATCCATAAAGGACTTAAAAAGATTATAAATGGGATAAACATATCCTAAATTCTCACCTTCGG
64 GATAACCCTAAAGGACTTAAAAAGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTCAG
* * *
63052 CATAAAAGCAGACCCAATGACAATCT
129 CATAAAAGCAAACCCAGTGACAACCT
* * * * *
63078 AGGACTCGATTCTAAACAAATTACAAGAACT-CCTCTAGGGGATACCTTCGACTTGAAAAGATCT
1 AGGACTCGATTCTAAA-AAATTACAA-AAATACCCCTAGGAGATACCTTCGACAT-AAAAGAGCT
* * * * * * *
63142 TGGTAACCCTAAAAGACTTAAAAAGATTAGAGATAGGATAAACCTATCCTAAATGCCCACCTTTA
63 TGATAACCCTAAAGGACTTAAAAAGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTCA
*
63207 GCATAAAAGCAAACCTAGTGACAACCT
128 GCATAAAAGCAAACCCAGTGACAACCT
* * * * *
63234 AAGACTCGATTCTAAAAAATTACAAAAATGCCCTTA-AAGGATACCTTCGACGTAAAAG
1 AGGACTCGATTCTAAAAAATTACAAAAATACCCCTAGGA-GATACCTTCGACATAAAAG
63292 TATCCTAGTA
Statistics
Matches: 419, Mismatches: 91, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
154 10 0.02
155 147 0.35
156 140 0.33
157 104 0.25
158 18 0.04
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (154 bp):
AGGACTCGATTCTAAAAAATTACAAAAATACCCCTAGGAGATACCTTCGACATAAAAGAGCTTGA
TAACCCTAAAGGACTTAAAAAGATTATAAATGGGATAAACCTATCCTAAATACCCACCTTCAGCA
TAAAAGCAAACCCAGTGACAACCT
Found at i:63323 original size:312 final size:309
Alignment explanation
Indices: 62612--63320 Score: 752
Period size: 312 Copynumber: 2.3 Consensus size: 309
62602 TGATGACAAG
* * * * * *
62612 GACTCAGATTTTAAAAAATTACAAAAATAACCTTAAGGGATATCTTCTACATAAAAGTGCTCGAT
1 GACTC-GATTCTAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACATAAAAGTCCTAGAT
* *
62677 ATCCCTAAAGGACTTCAAAAAGATTATAGATGGGATAAACCTATCCTAAATACCCACCTTCAGCA
65 A-CCCTAAAGGACTT-AAAAAGATTATAAATGGGATAAACATATCCTAAATACCCACCTTCAGCA
* ** * * * * *
62742 TAAAAGCCGACCCGGTGACAACCTAGGACTCAATTTTAGAAAATTATGAAAATGCCCCTTTAAAT
128 TAAAAGCAGACCCAATGACAACCTAGGACTCAATTCTAAAAAATTATCAAAA-GCCCCTCTAAAG
* *** * * *
62807 AGACCCTCGACATAAAAGTATCTTGGTAACCTTAGTGGACACTAAAATGATAAGTAATGGGATGA
192 AGACCCTCGACATAAAAGTATCTTGGTAACCCTAAAAGACACTAAAAAGATAAGTAATAGGATAA
* * * *
62872 ACCTATCCTAAATACCCACCTTTGGCATAAAAACAAACCCGGTGACAGCCTAG
257 ACCTATCCTAAATACCCACCTTTAGCATAAAAACAAACCCAGTGACAACCTAA
* *
62925 GACTCGATTCTAAGAAAATTA-AGAAAATACCCCT-AGGAGATACCTTCGACATAAAAG-CGCTT
1 GACTCGATTCTAA-AAAATTACA-AAAATACCCTTAAGG-GATACCTTCGACATAAAAGTC-CTA
* * * *
62987 GATATCCATAAAGGACTTAAAAAGATTATAAATGGGATAAACATATCCTAAATTCTCACCTTCGG
62 GATA-CCCTAAAGGACTTAAAAAGATTATAAATGGGATAAACATATCCTAAATACCCACCTTCAG
* * *
63052 CATAAAAGCAGACCCAATGACAATCTAGGACTCGATTCTAAACAAATTA-CAAGAA-CTCCTCTA
126 CATAAAAGCAGACCCAATGACAACCTAGGACTCAATTCTAAA-AAATTATCAA-AAGCCCCTCTA
** * * * * *
63115 GGGGATACCTTCGACTTGAAAAG-ATCTTGGTAACCCTAAAAGAC-TTAAAAAGATTAG-AGATA
189 -AAGAGACCCTCGACAT-AAAAGTATCTTGGTAACCCTAAAAGACACTAAAAAGATAAGTA-ATA
* * *
63177 GGATAAACCTATCCTAAATGCCCACCTTTAGCATAAAAGCAAACCTAGTGACAACCTAA
251 GGATAAACCTATCCTAAATACCCACCTTTAGCATAAAAACAAACCCAGTGACAACCTAA
* * *
63236 GACTCGATTCTAAAAAATTACAAAAATGCCCTTAAAGGATACCTTCGACGTAAAAGTATCCTAG-
1 GACTCGATTCTAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACATAAAAG--TCCTAGA
*
63300 TACCCTTAAAAGACTTAAAAA
64 TACCC-TAAAGGACTTAAAAA
63321 AGAAAAAAAT
Statistics
Matches: 329, Mismatches: 52, Indels: 32
0.80 0.13 0.08
Matches are distributed among these distances:
310 37 0.11
311 101 0.31
312 120 0.36
313 71 0.22
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.24
Consensus pattern (309 bp):
GACTCGATTCTAAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACATAAAAGTCCTAGATA
CCCTAAAGGACTTAAAAAGATTATAAATGGGATAAACATATCCTAAATACCCACCTTCAGCATAA
AAGCAGACCCAATGACAACCTAGGACTCAATTCTAAAAAATTATCAAAAGCCCCTCTAAAGAGAC
CCTCGACATAAAAGTATCTTGGTAACCCTAAAAGACACTAAAAAGATAAGTAATAGGATAAACCT
ATCCTAAATACCCACCTTTAGCATAAAAACAAACCCAGTGACAACCTAA
Found at i:64684 original size:11 final size:10
Alignment explanation
Indices: 64667--64708 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
64657 AGAAACAAAA
64667 TCTTTTTTTT
1 TCTTTTTTTT
64677 TCCTTTTTTCTT
1 T-CTTTTTT-TT
*
64689 TCTTTTTTTC
1 TCTTTTTTTT
64699 TCTTTTTTTT
1 TCTTTTTTTT
64709 AAGCTTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 11 0.39
11 14 0.50
12 3 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:67152 original size:168 final size:166
Alignment explanation
Indices: 66766--67269 Score: 577
Period size: 168 Copynumber: 3.0 Consensus size: 166
66756 ATTTACCTGA
* * * * *
66766 GACTAAGCTGACAAGTAAACAAGGGACG-AAAGGTTGACGAGGGCTGAACCGATAAGTCAACAAA
1 GACTGAGCTGACAAGTAAAC-AGGGATGAAAAGGTTAACCAAGGCTGAACCGATAAGTCAACAAA
** * * * *
66830 GTG-TAAAGGAGTTTTACCAGGGACTAAGCCAACAAGTAAACAGGGATGAAAAGGTTGA-CGAGG
65 G-GATAAA-GAAATTTACCA-GGACTAAGCCGATAGGTAAAAAGGGATG-AAAGGTTGACCG-GG
* ** *
66893 GCTGAACCAATAAGTTAACAAAGCATAAAGGAGTTTTACCAAG
125 GCTGAACCAATAAGTCAACAAAGGGTAAGGGAG-TTTACCAAG
* *
66936 GACTGAGCTGACAAGTAAACAGGGATGAAAAGGTTGACCAAGGCTGAACCGATAAGTCAGCAAAG
1 GACTGAGCTGACAAGTAAACAGGGATGAAAAGGTTAACCAAGGCTGAACCGATAAGTCAACAAAG
* *
67001 GATAAAGAAATTTACTCAGGACTAAGCCGATAGGTAAATAAAGGATGAAAGGTTGACCGGGGCTA
66 GATAAAGAAATTTAC-CAGGACTAAGCCGATAGGTAAA-AAGGGATGAAAGGTTGACCGGGGCTG
*
67066 AACCAATAAGTCGACAAAGGGTAAGGGAGTTTACCAAG
129 AACCAATAAGTCAACAAAGGGTAAGGGAGTTTACCAAG
* * * *
67104 GACTGA-TTCGACAAGTAAATAGGGAT-AAAATGGTTAACCAAGGCTGAACTGATCAGTCAACAA
1 GACTGAGCT-GACAAGTAAACAGGGATGAAAA-GGTTAACCAAGGCTGAACCGATAAGTCAACAA
* * * *
67167 AGGATAAAGTAATTTACCTGGGACTAAGCCGATAGGTAAACAAGGGATGAAAGGTGGACCAGGGC
64 AGGATAAAGAAATTTACC-AGGACTAAGCCGATAGGTAAA-AAGGGATGAAAGGTTGACCGGGGC
* * *
67232 TGAACCGATAAGTCAATAAAGGGCAAGGGAGTTTACCA
127 TGAACCAATAAGTCAACAAAGGGTAAGGGAGTTTACCA
67270 GGGATTGAAC
Statistics
Matches: 291, Mismatches: 35, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
167 6 0.02
168 149 0.51
169 69 0.24
170 67 0.23
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.17
Consensus pattern (166 bp):
GACTGAGCTGACAAGTAAACAGGGATGAAAAGGTTAACCAAGGCTGAACCGATAAGTCAACAAAG
GATAAAGAAATTTACCAGGACTAAGCCGATAGGTAAAAAGGGATGAAAGGTTGACCGGGGCTGAA
CCAATAAGTCAACAAAGGGTAAGGGAGTTTACCAAG
Found at i:67294 original size:84 final size:84
Alignment explanation
Indices: 66747--67273 Score: 515
Period size: 84 Copynumber: 6.2 Consensus size: 84
66737 GTTAAAAAAA
* * * * * * *
66747 GATAAAGAAATTTACCTGAGACTAAGCTGACAAGTAAACAAGGGACGAAAGGTTGACGAGGGCTG
1 GATAAAGGAGTTTACCAGGGACTAAGCCGACAAGTAAACAAGGGATGAAAGGTTGACCAGGGCTG
66812 AACCGATAAGTCAACAAAG
66 AACCGATAAGTCAACAAAG
* *
66831 TG-TAAAGGAGTTTTACCAGGGACTAAGCCAACAAGTAAAC-AGGGATGAAAAGGTTGACGAGGG
1 -GATAAAGGAG-TTTACCAGGGACTAAGCCGACAAGTAAACAAGGGATG-AAAGGTTGACCAGGG
* *
66894 CTGAACCAATAAGTTAACAAAG
63 CTGAACCGATAAGTCAACAAAG
* * * * *
66916 CATAAAGGAGTTTTACCAAGGACTGAGCTGACAAGTAAAC-AGGGATGAAAAGGTTGACCAAGGC
1 GATAAAGGAG-TTTACCAGGGACTAAGCCGACAAGTAAACAAGGGATG-AAAGGTTGACCAGGGC
*
66980 TGAACCGATAAGTCAGCAAAG
64 TGAACCGATAAGTCAACAAAG
* * * * * * *
67001 GATAAAGAAATTTACTCA-GGACTAAGCCGATAGGTAAATAAAGGATGAAAGGTTGACCGGGGCT
1 GATAAAGGAGTTTAC-CAGGGACTAAGCCGACAAGTAAACAAGGGATGAAAGGTTGACCAGGGCT
* * *
67065 AAACCAATAAGTCGACAAAG
65 GAACCGATAAGTCAACAAAG
* * * * ** * * * *
67085 GGTAAGGGAGTTTACCAAGGACTGATTCGACAAGTAAA-TAGGGATAAAATGGTTAACCAAGGCT
1 GATAAAGGAGTTTACCAGGGACTAAGCCGACAAGTAAACAAGGGATGAAA-GGTTGACCAGGGCT
* *
67149 GAACTGATCAGTCAACAAAG
65 GAACCGATAAGTCAACAAAG
* * * * * *
67169 GATAAAGTAATTTACCTGGGACTAAGCCGATAGGTAAACAAGGGATGAAAGGTGGACCAGGGCTG
1 GATAAAGGAGTTTACCAGGGACTAAGCCGACAAGTAAACAAGGGATGAAAGGTTGACCAGGGCTG
*
67234 AACCGATAAGTCAATAAAG
66 AACCGATAAGTCAACAAAG
** *
67253 GGCAAGGGAGTTTACCAGGGA
1 GATAAAGGAGTTTACCAGGGA
67274 TTGAACTAAC
Statistics
Matches: 355, Mismatches: 79, Indels: 17
0.79 0.18 0.04
Matches are distributed among these distances:
83 10 0.03
84 186 0.52
85 159 0.45
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.17
Consensus pattern (84 bp):
GATAAAGGAGTTTACCAGGGACTAAGCCGACAAGTAAACAAGGGATGAAAGGTTGACCAGGGCTG
AACCGATAAGTCAACAAAG
Found at i:67800 original size:87 final size:86
Alignment explanation
Indices: 67666--67961 Score: 301
Period size: 87 Copynumber: 3.4 Consensus size: 86
67656 AAAGGGTTAA
* * ** *
67666 CTAGGGCAAAACCGATAAAGTCAACTAAGGAT-AAAAAAGGTTTGACCAGGGTGGTAACCGATGC
1 CTAGGGCGAAA-CGATAAAGCCAACTAAGGATGAAAGGAGGTTTGACCAGGGTGGTAACCGATAC
*
67730 AGTCAAACAATTAAAAAGTTGG
65 AGTCAAACGATTAAAAAGTTGG
* * * * *
67752 -TCAGGGCGAAATCGATAAAACCAACCAAGGATGAAAGGAGGTTTGACCAAGGTAGTAACTGATA
1 CT-AGGGCGAAA-CGATAAAGCCAACTAAGGATGAAAGGAGGTTTGACCAGGGTGGTAACCGATA
67816 CAGTCAAACGATTAAAAAGTTGG
64 CAGTCAAACGATTAAAAAGTTGG
* * * ***
67839 CTAAGGTGAAACTGATAAAGCCAACTAAGGATGAAAAGG-GGTTTAATTGGGGTGGTAACCGATA
1 CTAGGGCGAAAC-GATAAAGCCAACTAAGGATG-AAAGGAGGTTTGACCAGGGTGGTAACCGATA
* * *
67903 TAGTCAAATGATTAAAAAGTTAG
64 CAGTCAAACGATTAAAAAGTTGG
* * * *
67926 CCAAGGTGAAACTGATAAAGCTAACTAAGGATGAAA
1 CTAGGGCGAAAC-GATAAAGCCAACTAAGGATGAAA
67962 AAGGGTTTGA
Statistics
Matches: 177, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
85 1 0.01
86 29 0.16
87 141 0.80
88 6 0.03
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (86 bp):
CTAGGGCGAAACGATAAAGCCAACTAAGGATGAAAGGAGGTTTGACCAGGGTGGTAACCGATACA
GTCAAACGATTAAAAAGTTGG
Found at i:67958 original size:174 final size:173
Alignment explanation
Indices: 67674--67997 Score: 382
Period size: 174 Copynumber: 1.9 Consensus size: 173
67664 AACTAGGGCA
* * *
67674 AAACCGATAAAGTCAACTAAGGATAAAAAAGGTTTGACCAGGGTGGTAACCGATGCAGTCAAACA
1 AAACCGATAAAGCCAACTAAGGATAAAAAAGGTTTAACCAGGGTGGTAACCGATACAGTCAAACA
* * * *
67739 ATTAAAAAGTTGGTCAGGGCGAAATCGATAAAACCAACCAAGGATG-AAAGGAGGTTTGACCAAG
66 ATTAAAAAGTTAGCCAAGGCGAAATCGATAAAACCAACCAAGGATGAAAAAG-GGTTTGACCAAG
* *
67803 GTAGTAACTGATACAGTCAAACGATTAAAAAGTTGGCTAAGGTG
130 GCAGCAACTGATACAGTCAAACGATTAAAAAGTTGGCTAAGGTG
* ** *** * *
67847 AAACTGATAAAGCCAACTAAGGATGAAAAGGGGTTTAATTGGGGTGGTAACCGATATAGTCAAAT
1 AAACCGATAAAGCCAACTAAGGAT-AAAAAAGGTTTAACCAGGGTGGTAACCGATACAGTCAAAC
* * * * * *
67912 GATTAAAAAGTTAGCCAAGGTGAAA-CTGATAAAGCTAACTAAGGATGAAAAAGGGTTTGACTAA
65 AATTAAAAAGTTAGCCAAGGCGAAATC-GATAAAACCAACCAAGGATGAAAAAGGGTTTGACCAA
* *
67976 TGCGGCAACTGATACAGTCAAA
129 GGCAGCAACTGATACAGTCAAA
67998 TGAAGGTGAG
Statistics
Matches: 123, Mismatches: 25, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
173 23 0.19
174 96 0.78
175 4 0.03
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (173 bp):
AAACCGATAAAGCCAACTAAGGATAAAAAAGGTTTAACCAGGGTGGTAACCGATACAGTCAAACA
ATTAAAAAGTTAGCCAAGGCGAAATCGATAAAACCAACCAAGGATGAAAAAGGGTTTGACCAAGG
CAGCAACTGATACAGTCAAACGATTAAAAAGTTGGCTAAGGTG
Found at i:67995 original size:87 final size:87
Alignment explanation
Indices: 67674--68000 Score: 273
Period size: 87 Copynumber: 3.8 Consensus size: 87
67664 AACTAGGGCA
* * * * * * * * * * *
67674 AAACCGATAAAGTCAACTAAGGAT-AAAAAAGGTTTGACCAGGGTGGTAACCGATGCAGTCAAAC
1 AAACTGATAAAGCCAACTAAGGATGAAAAAGGGTTTAACTAAGGCGGCAACTGATACAGTCAAAT
* * * * *
67738 AATTAAAAAGTTGGTCAGGGCG
66 GATTAAAAAGTTAGCCAAGGTG
* * * * * ** *
67760 AAA-TCGATAAAACCAACCAAGGATG-AAAGGAGGTTTGACCAAGGTAGTAACTGATACAGTCAA
1 AAACT-GATAAAGCCAACTAAGGATGAAAAAG-GGTTTAACTAAGGCGGCAACTGATACAGTCAA
* * *
67823 ACGATTAAAAAGTTGGCTAAGGTG
64 ATGATTAAAAAGTTAGCCAAGGTG
* * ** * * * *
67847 AAACTGATAAAGCCAACTAAGGATGAAAAGGGGTTTAATTGGGGTGGTAACCGATATAGTCAAAT
1 AAACTGATAAAGCCAACTAAGGATGAAAAAGGGTTTAACTAAGGCGGCAACTGATACAGTCAAAT
67912 GATTAAAAAGTTAGCCAAGGTG
66 GATTAAAAAGTTAGCCAAGGTG
* * *
67934 AAACTGATAAAGCTAACTAAGGATGAAAAAGGGTTTGACTAATGCGGCAACTGATACAGTCAAAT
1 AAACTGATAAAGCCAACTAAGGATGAAAAAGGGTTTAACTAAGGCGGCAACTGATACAGTCAAAT
67999 GA
66 GA
68001 AGGTGAGAAG
Statistics
Matches: 197, Mismatches: 39, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
86 22 0.11
87 169 0.86
88 6 0.03
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (87 bp):
AAACTGATAAAGCCAACTAAGGATGAAAAAGGGTTTAACTAAGGCGGCAACTGATACAGTCAAAT
GATTAAAAAGTTAGCCAAGGTG
Found at i:68408 original size:46 final size:47
Alignment explanation
Indices: 68303--68474 Score: 140
Period size: 47 Copynumber: 3.7 Consensus size: 47
68293 GTGGTAACCG
* * * ***
68303 ATATAGTCAAATGAA-GGT-GAGAAGAGTTTCACCATGTCCTAATGTCA
1 ATATAGTCAAAT-AAGGGTGGA-AAGAGTTTGACTAAGTCCTAACACCA
* ** *
68350 ATATAGTCAAATAAGGGTGGAAAGAGTTTGA-TGAGGGTGGT-A-ACCG
1 ATATAGTCAAATAAGGGTGGAAAGAGTTTGACT-A-AGTCCTAACACCA
**
68396 ATATAGTCAAATAAATGT-GAGAAGAGTTTGACTAAGTCCTAACACCA
1 ATATAGTCAAATAAGGGTGGA-AAGAGTTTGACTAAGTCCTAACACCA
*
68443 ATATAGTCAAATAAGGGTGGAAAAAGTTTGAC
1 ATATAGTCAAATAAGGGTGGAAAGAGTTTGAC
68475 CAATGTGGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
45 5 0.05
46 31 0.31
47 56 0.57
48 7 0.07
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (47 bp):
ATATAGTCAAATAAGGGTGGAAAGAGTTTGACTAAGTCCTAACACCA
Found at i:68452 original size:93 final size:93
Alignment explanation
Indices: 68293--68473 Score: 281
Period size: 93 Copynumber: 1.9 Consensus size: 93
68283 CTTGGCTAGA
* * ***
68293 GTGGTAACCGATATAGTCAAATGAAGGTGAGAAGAGTTTCACCATGTCCTAATGTCAATATAGTC
1 GTGGTAACCGATATAGTCAAATAAAGGTGAGAAGAGTTTCACCAAGTCCTAACACCAATATAGTC
*
68358 AAATAAGGGTGGAAAGAGTTTGATGAGG
66 AAATAAGGGTGGAAAAAGTTTGATGAGG
* * *
68386 GTGGTAACCGATATAGTCAAATAAATGTGAGAAGAGTTTGACTAAGTCCTAACACCAATATAGTC
1 GTGGTAACCGATATAGTCAAATAAAGGTGAGAAGAGTTTCACCAAGTCCTAACACCAATATAGTC
68451 AAATAAGGGTGGAAAAAGTTTGA
66 AAATAAGGGTGGAAAAAGTTTGA
68474 CCAATGTGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGGTAACCGATATAGTCAAATAAAGGTGAGAAGAGTTTCACCAAGTCCTAACACCAATATAGTC
AAATAAGGGTGGAAAAAGTTTGATGAGG
Found at i:68519 original size:93 final size:93
Alignment explanation
Indices: 68293--68522 Score: 228
Period size: 93 Copynumber: 2.5 Consensus size: 93
68283 CTTGGCTAGA
* * ** * * * * ***
68293 GTGGTAACCGATATAGTCAAATGAAGGTGAGAAGAGTTTCACCATGTCCTAATGTCAATATAGTC
1 GTGGTAACCGATACAATCAAACAAAGGTGAGAAGAATTTGACTAAGTCCTAACACCAATATAGTC
* ** *
68358 AAATAAGGGTGGAAAGAGTTTGATGAGG
66 AAATAAGGGTGGAAAAAGTTTGACCAAG
* * * * *
68386 GTGGTAACCGATATAGTCAAATAAATGTGAGAAGAGTTTGACTAAGTCCTAACACCAATATAGTC
1 GTGGTAACCGATACAATCAAACAAAGGTGAGAAGAATTTGACTAAGTCCTAACACCAATATAGTC
*
68451 AAATAAGGGTGGAAAAAGTTTGACCAAT
66 AAATAAGGGTGGAAAAAGTTTGACCAAG
* * *
68479 GTGGTAATCGATACAATGAAACGAAGGTG-GAAAGAATTTGACTA
1 GTGGTAACCGATACAATCAAACAAAGGTGAG-AAGAATTTGACTA
68523 GATATAGTCA
Statistics
Matches: 115, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
92 1 0.01
93 114 0.99
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGGTAACCGATACAATCAAACAAAGGTGAGAAGAATTTGACTAAGTCCTAACACCAATATAGTC
AAATAAGGGTGGAAAAAGTTTGACCAAG
Found at i:68543 original size:35 final size:36
Alignment explanation
Indices: 68497--68694 Score: 176
Period size: 36 Copynumber: 5.7 Consensus size: 36
68487 CGATACAATG
*
68497 AAACGAAGGTGGAAAGAA-TTTGACTAGATATAGTC
1 AAACGATGGTGGAAAGAAGTTTGACTAGATATAGTC
** *
68532 AAACGATGGTGGAAA-AATGTTTGACTAGATGCAATC
1 AAACGATGGTGGAAAGAA-GTTTGACTAGATATAGTC
* *
68568 AAACGATGGTGGAGAG-AGTTTAACTAG--ATAGTC
1 AAACGATGGTGGAAAGAAGTTTGACTAGATATAGTC
* * * * * * *
68601 AAACAATGATGG-AGGGAGTTTGACCAGATACACTC
1 AAACGATGGTGGAAAGAAGTTTGACTAGATATAGTC
* * *
68636 AAACTATGATGGAAAGAAGTTTGACTAGATGTAGTC
1 AAACGATGGTGGAAAGAAGTTTGACTAGATATAGTC
* *
68672 AAACAAAGGT-GAAAGAAGTTTGA
1 AAACGATGGTGGAAAGAAGTTTGA
68695 TTAAAAACAC
Statistics
Matches: 129, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
32 1 0.01
33 22 0.17
34 2 0.02
35 51 0.40
36 53 0.41
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.23
Consensus pattern (36 bp):
AAACGATGGTGGAAAGAAGTTTGACTAGATATAGTC
Found at i:68570 original size:36 final size:35
Alignment explanation
Indices: 68488--68694 Score: 152
Period size: 35 Copynumber: 5.9 Consensus size: 35
68478 TGTGGTAATC
* * *
68488 GATACAATGAAACGAAGGTGGAAAGAA-TTTGACTA
1 GATACAGTCAAACGATGGTGGAAA-AAGTTTGACTA
*
68523 GATATAGTCAAACGATGGTGGAAAAATGTTTGACTA
1 GATACAGTCAAACGATGGTGGAAAAA-GTTTGACTA
* * * * *
68559 GATGCAATCAAACGATGGTGGAGAGAGTTTAACTA
1 GATACAGTCAAACGATGGTGGAAAAAGTTTGACTA
* * *** *
68594 GAT--AGTCAAACAATGATGGAGGGAGTTTGACCA
1 GATACAGTCAAACGATGGTGGAAAAAGTTTGACTA
* * *
68627 GATACACTCAAACTATGATGGAAAGAAGTTTGACTA
1 GATACAGTCAAACGATGGTGGAAA-AAGTTTGACTA
** * *
68663 GATGTAGTCAAACAAAGGT-GAAAGAAGTTTGA
1 GATACAGTCAAACGATGGTGGAAA-AAGTTTGA
68695 TTAAAAACAC
Statistics
Matches: 139, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
33 27 0.19
34 2 0.01
35 59 0.42
36 51 0.37
ACGTcount: A:0.41, C:0.10, G:0.26, T:0.23
Consensus pattern (35 bp):
GATACAGTCAAACGATGGTGGAAAAAGTTTGACTA
Found at i:69955 original size:20 final size:21
Alignment explanation
Indices: 69930--69980 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
69920 CATGGTCTAA
*
69930 TATCGATACATTCACTTA-TG
1 TATCGATACATTAACTTATTG
69950 TATCGATACATTAACTTATTG
1 TATCGATACATTAACTTATTG
*
69971 TATCTATACA
1 TATCGATACA
69981 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (21 bp):
TATCGATACATTAACTTATTG
Found at i:70727 original size:52 final size:52
Alignment explanation
Indices: 70661--71087 Score: 347
Period size: 52 Copynumber: 8.2 Consensus size: 52
70651 TTCAAAGCGT
* *
70661 GCGACACTAGACTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAGGCCA
1 GCGACATTAGACTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCCA
* *
70713 GCGACATTAGACTTAAAGATGATAAGGGTGCCAATGTGATGATTCAAGGCCA
1 GCGACATTAGACTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCCA
* * * * * * *
70765 GCGTCATTAGGCTTAAAGTTGATAAAAAGTGCCAATGTACTTATTCAAGGCTA
1 GCGACATTAGACTTAAAGATGAT-AAGAGTGCCAATGTGCTGATTCAAGGCCA
* * * * * *
70818 GCGACATTGGGCTTAAAGATGATAAAAGTG-CAATATGCTGACTCAAGGCTA
1 GCGACATTAGACTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCCA
* **** ** * * *
70869 GTGATGCCAGACTTAAAGATGGCAAGAGTG-TAATGTGCTGATTTAAGACCA
1 GCGACATTAGACTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCCA
* * * * * * * * * *
70920 ACGATATTGGATTTAAAAATGATAAAAGGTACCAATATGTTAATTCAAGGCCA
1 GCGACATTAGACTTAAAGATGATAAGA-GTGCCAATGTGCTGATTCAAGGCCA
* * * * * *
70973 GTGACATTGGGCTTAAAGGTGATGAAG-GTGCCAATATGCTGATTCAAGGCTA
1 GCGACATTAGACTTAAAGATGAT-AAGAGTGCCAATGTGCTGATTCAAGGCCA
* * * * * *
71025 GTGATATTGGACTTAGAAGGTGACAAGAGTGCCAATGTGCTAATTCAAGGCCA
1 GCGACATTAGACTTA-AAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCCA
*
71078 GTGACATTAG
1 GCGACATTAG
71088 GCTTTGGGAA
Statistics
Matches: 297, Mismatches: 72, Indels: 11
0.78 0.19 0.03
Matches are distributed among these distances:
51 68 0.23
52 116 0.39
53 111 0.37
54 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (52 bp):
GCGACATTAGACTTAAAGATGATAAGAGTGCCAATGTGCTGATTCAAGGCCA
Found at i:70831 original size:53 final size:52
Alignment explanation
Indices: 70661--71091 Score: 278
Period size: 53 Copynumber: 8.3 Consensus size: 52
70651 TTCAAAGCGT
* * ** *
70661 GCGACACTAGACTTAAAGATGATAAGGGTGCCAATGTGCTGATTCAAGGCCA
1 GCGACATTAGGCTTAAAGATGATAAAAGTGCCAATGTACTGATTCAAGGCCA
* **
70713 GCGACATTAGACTTAAAGATGATAAGGGTGCCAATGTGA-TGATTCAAGGCCA
1 GCGACATTAGGCTTAAAGATGATAAAAGTGCCAATGT-ACTGATTCAAGGCCA
* * * *
70765 GCGTCATTAGGCTTAAAGTTGATAAAAAGTGCCAATGTACTTATTCAAGGCTA
1 GCGACATTAGGCTTAAAGATGAT-AAAAGTGCCAATGTACTGATTCAAGGCCA
* * * * *
70818 GCGACATTGGGCTTAAAGATGATAAAAGTG-CAATATGCTGACTCAAGGCTA
1 GCGACATTAGGCTTAAAGATGATAAAAGTGCCAATGTACTGATTCAAGGCCA
* **** * ** * * * * *
70869 GTGATGCCAGACTTAAAGATGGCAAGAGTG-TAATGTGCTGATTTAAGACCA
1 GCGACATTAGGCTTAAAGATGATAAAAGTGCCAATGTACTGATTCAAGGCCA
* * * * * * ** *
70920 ACGATATT-GGATTTAAAAATGATAAAAGGTACCAATATGTTAATTCAAGGCCA
1 GCGACATTAGG-CTTAAAGATGATAAAA-GTGCCAATGTACTGATTCAAGGCCA
* * * * * * * *
70973 GTGACATTGGGCTTAAAGGTGATGAAGGTGCCAATATGCTGATTCAAGGCTA
1 GCGACATTAGGCTTAAAGATGATAAAAGTGCCAATGTACTGATTCAAGGCCA
* * * * * * *
71025 GTGATATT-GGACTTAGAAGGTGACAAGAGTGCCAATGTGCTAATTCAAGGCCA
1 GCGACATTAGG-CTTA-AAGATGATAAAAGTGCCAATGTACTGATTCAAGGCCA
*
71078 GTGACATTAGGCTT
1 GCGACATTAGGCTT
71092 TGGGAAAAAG
Statistics
Matches: 298, Mismatches: 71, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
50 1 0.00
51 68 0.23
52 111 0.37
53 114 0.38
54 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (52 bp):
GCGACATTAGGCTTAAAGATGATAAAAGTGCCAATGTACTGATTCAAGGCCA
Found at i:71069 original size:105 final size:104
Alignment explanation
Indices: 70663--71091 Score: 373
Period size: 105 Copynumber: 4.1 Consensus size: 104
70653 CAAAGCGTGC
* * *
70663 GACACTAGACTTAAAGATGAT-AAGGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
1 GACATTAGGCTTAAAGATGATGAA-GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
** * * * *
70727 AAAGATGATAAGGGTGCCAATGTGATGATTCAAGGCCAGC
65 AAAGATGATAAAAGTGCCAATATGCTAATTCAAGGCCAGT
* * * * * * * *
70767 GTCATTAGGCTTAAAGTTGATAAAAAGTGCCAATGTACTTATTCAAGGCTAGCGACATTGGGCTT
1 GACATTAGGCTTAAAGATGAT-GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
70832 AAAGATGATAAAAGTG-CAATATGCTGACTCAAGGCTAGT
65 AAAGATGATAAAAGTGCCAATATGCTAATTCAAGGCCAGT
**** * * * * * * *
70871 GATGCCAGACTTAAAGATG--GCAAGAGTG-TAATGTGCTGATTTAAGACCAACGATATTGGATT
1 GACATTAGGCTTAAAGATGATG-AAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACT
* * *
70933 TAAAAATGATAAAAGGTACCAATATGTTAATTCAAGGCCAGT
64 TAAAGATGATAAAA-GTGCCAATATGCTAATTCAAGGCCAGT
* * * * * *
70975 GACATTGGGCTTAAAGGTGATGAAGGTGCCAATATGCTGATTCAAGGCTAGTGATATTGGACTTA
1 GACATTAGGCTTAAAGATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
* * * *
71040 GAAGGTGACAAGAGTGCCAATGTGCTAATTCAAGGCCAGT
66 -AAGATGATAAAAGTGCCAATATGCTAATTCAAGGCCAGT
71080 GACATTAGGCTT
1 GACATTAGGCTT
71092 TGGGAAAAAG
Statistics
Matches: 250, Mismatches: 65, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
102 39 0.16
103 5 0.02
104 81 0.32
105 114 0.46
106 11 0.04
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (104 bp):
GACATTAGGCTTAAAGATGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
AAGATGATAAAAGTGCCAATATGCTAATTCAAGGCCAGT
Found at i:71198 original size:27 final size:27
Alignment explanation
Indices: 71160--71349 Score: 245
Period size: 27 Copynumber: 6.9 Consensus size: 27
71150 TAGGAGGAAA
*
71160 TGCCACTAACTTGTGTGGGCTTTTAAG
1 TGCCGCTAACTTGTGTGGGCTTTTAAG
71187 TGCCGCTAACTTGTGTGGGCTTTTAAG
1 TGCCGCTAACTTGTGTGGGCTTTTAAG
* * *
71214 TGCCGCTAGCTTGTGTGGACTTTGAGAAAGG
1 TGCCGCTAACTTGTGTGGGCTTT---TAA-G
* * *
71245 ATGCCACTGACTTGTATGGGCTTTTAAG
1 -TGCCGCTAACTTGTGTGGGCTTTTAAG
71273 TGCCGCTAACTTGTGTGGGCTTTTAAG
1 TGCCGCTAACTTGTGTGGGCTTTTAAG
*
71300 TGCCACTAACTTGTGTGGGCTTTTAAG
1 TGCCGCTAACTTGTGTGGGCTTTTAAG
* *
71327 TGCCGCTAGCTTGTGTGGACTTT
1 TGCCGCTAACTTGTGTGGGCTTT
71350 GAGAAAGGAT
Statistics
Matches: 141, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
27 117 0.83
28 1 0.01
29 2 0.01
30 2 0.01
31 1 0.01
32 18 0.13
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (27 bp):
TGCCGCTAACTTGTGTGGGCTTTTAAG
Found at i:71303 original size:113 final size:113
Alignment explanation
Indices: 71160--71382 Score: 428
Period size: 113 Copynumber: 2.0 Consensus size: 113
71150 TAGGAGGAAA
*
71160 TGCCACTAACTTGTGTGGGCTTTTAAGTGCCGCTAACTTGTGTGGGCTTTTAAGTGCCGCTAGCT
1 TGCCACTAACTTGTGTGGGCTTTTAAGTGCCACTAACTTGTGTGGGCTTTTAAGTGCCGCTAGCT
71225 TGTGTGGACTTTGAGAAAGGATGCCACTGACTTGTATGGGCTTTTAAG
66 TGTGTGGACTTTGAGAAAGGATGCCACTGACTTGTATGGGCTTTTAAG
*
71273 TGCCGCTAACTTGTGTGGGCTTTTAAGTGCCACTAACTTGTGTGGGCTTTTAAGTGCCGCTAGCT
1 TGCCACTAACTTGTGTGGGCTTTTAAGTGCCACTAACTTGTGTGGGCTTTTAAGTGCCGCTAGCT
71338 TGTGTGGACTTTGAGAAAGGATGCCACTGACTTGTATGGGCTTTT
66 TGTGTGGACTTTGAGAAAGGATGCCACTGACTTGTATGGGCTTTT
71383 GAGAATGGGT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 108 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (113 bp):
TGCCACTAACTTGTGTGGGCTTTTAAGTGCCACTAACTTGTGTGGGCTTTTAAGTGCCGCTAGCT
TGTGTGGACTTTGAGAAAGGATGCCACTGACTTGTATGGGCTTTTAAG
Found at i:71313 original size:86 final size:86
Alignment explanation
Indices: 71159--71322 Score: 283
Period size: 86 Copynumber: 1.9 Consensus size: 86
71149 TTAGGAGGAA
* * *
71159 ATGCCACTAACTTGTGTGGGCTTTTAAGTGCCGCTAACTTGTGTGGGCTTTTAAGTGCCGCTAGC
1 ATGCCACTAACTTGTATGGGCTTTTAAGTGCCGCTAACTTGTGTGGGCTTTTAAGTGCCACTAAC
71224 TTGTGTGGACTTTGAGAAAGG
66 TTGTGTGGACTTTGAGAAAGG
*
71245 ATGCCACTGACTTGTATGGGCTTTTAAGTGCCGCTAACTTGTGTGGGCTTTTAAGTGCCACTAAC
1 ATGCCACTAACTTGTATGGGCTTTTAAGTGCCGCTAACTTGTGTGGGCTTTTAAGTGCCACTAAC
*
71310 TTGTGTGGGCTTT
66 TTGTGTGGACTTT
71323 TAAGTGCCGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (86 bp):
ATGCCACTAACTTGTATGGGCTTTTAAGTGCCGCTAACTTGTGTGGGCTTTTAAGTGCCACTAAC
TTGTGTGGACTTTGAGAAAGG
Found at i:71552 original size:31 final size:32
Alignment explanation
Indices: 71470--71571 Score: 134
Period size: 32 Copynumber: 3.2 Consensus size: 32
71460 ACTCGCGCGG
* **
71470 GCTTTTGGAAAGGTTGCCACCAACTTGTATGG
1 GCTTTTGAAAAGGTTGCCACCAACTTGTATAA
*
71502 GCTTTTGAAAAGGGTTGCCACCAACTTTTATAA
1 GCTTTTGAAAA-GGTTGCCACCAACTTGTATAA
* *
71535 GC-TTTGAAAAGGTTGCCACCAACTTGTGTAG
1 GCTTTTGAAAAGGTTGCCACCAACTTGTATAA
71566 GCTTTT
1 GCTTTT
71572 TGGGTGCCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
31 20 0.33
32 21 0.34
33 20 0.33
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (32 bp):
GCTTTTGAAAAGGTTGCCACCAACTTGTATAA
Found at i:71585 original size:124 final size:126
Alignment explanation
Indices: 71347--71586 Score: 304
Period size: 124 Copynumber: 1.9 Consensus size: 126
71337 TTGTGTGGAC
** * * * * **
71347 TTTGAGAAAGGATGCCACTGACTTGTATGGGCTTTTGAGAATGGGTTGCTACCGACTTGCGTGGG
1 TTTGAGAAAGGATGCCACCAACTTGTATGGGCTTTTGAGAAAGGGTTGCCACCAACTTGCATAAG
* * * *
71412 CTTTGAAAGGGTTACCACTAATTTGTATAGGCTTTTTAGGTGCCTCCAACTCGCGCGGGCT
66 CTTTGAAAAGGTTACCACCAACTTGTATAGGCTTTTTAGGTGCCCCCAACTCGCGCGGGCT
* **
71473 TTTG-GAAAGGTTGCCACCAACTTGTATGGGCTTTTGA-AAAGGGTTGCCACCAACTTTTATAAG
1 TTTGAGAAAGGATGCCACCAACTTGTATGGGCTTTTGAGAAAGGGTTGCCACCAACTTGCATAAG
* * *
71536 CTTTGAAAAGGTTGCCACCAACTTGTGTAGGCTTTTTGGGTGCCCCCAACT
66 CTTTGAAAAGGTTACCACCAACTTGTATAGGCTTTTTAGGTGCCCCCAACT
71587 TGAGTGGGCT
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
124 62 0.65
125 30 0.31
126 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (126 bp):
TTTGAGAAAGGATGCCACCAACTTGTATGGGCTTTTGAGAAAGGGTTGCCACCAACTTGCATAAG
CTTTGAAAAGGTTACCACCAACTTGTATAGGCTTTTTAGGTGCCCCCAACTCGCGCGGGCT
Found at i:71644 original size:29 final size:29
Alignment explanation
Indices: 71612--71721 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 29
71602 AGGGTACTAT
*
71612 GGAGTTGTGGACTTT-AAAATGGGTGTCGC
1 GGAGTTATGGACTTTGAAAA-GGGTGTCGC
* *
71641 GGAGTTATGGACTTTAAAAAGGGTGCTAG-
1 GGAGTTATGGACTTTGAAAAGGGTG-TCGC
* * * *
71670 AGAGTCATGGACTTTGAAAAGGGTGCCAC
1 GGAGTTATGGACTTTGAAAAGGGTGTCGC
* *
71699 TGAGTTGTGGACTTTGAAAAGGG
1 GGAGTTATGGACTTTGAAAAGGG
71722 GTACCACAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
29 61 0.91
30 6 0.09
ACGTcount: A:0.27, C:0.10, G:0.35, T:0.27
Consensus pattern (29 bp):
GGAGTTATGGACTTTGAAAAGGGTGTCGC
Found at i:71664 original size:58 final size:58
Alignment explanation
Indices: 71600--71721 Score: 140
Period size: 58 Copynumber: 2.1 Consensus size: 58
71590 GTGGGCTTTG
** * *
71600 AAAGGGTACTATG-GAGTTGTGGACTTT-AAAATGGGTGTCGCGGAGTTATGGACTTTAA
1 AAAGGGTACTA-GAGAGTCATGGACTTTGAAAA-GGGTGCCACGGAGTTATGGACTTTAA
* * * *
71658 AAAGGGTGCTAGAGAGTCATGGACTTTGAAAAGGGTGCCACTGAGTTGTGGACTTTGA
1 AAAGGGTACTAGAGAGTCATGGACTTTGAAAAGGGTGCCACGGAGTTATGGACTTTAA
71716 AAAGGG
1 AAAGGG
71722 GTACCACAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 1 0.02
58 49 0.91
59 4 0.07
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.27
Consensus pattern (58 bp):
AAAGGGTACTAGAGAGTCATGGACTTTGAAAAGGGTGCCACGGAGTTATGGACTTTAA
Found at i:73690 original size:18 final size:19
Alignment explanation
Indices: 73669--73709 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
73659 AATTCATTCA
73669 TTTTCATGAGTTTTGAATT
1 TTTTCATGAGTTTTGAATT
* *
73688 TTTTCTTTAGTTTTGAATT
1 TTTTCATGAGTTTTGAATT
73707 TTT
1 TTT
73710 CTTTGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (19 bp):
TTTTCATGAGTTTTGAATT
Found at i:73710 original size:18 final size:19
Alignment explanation
Indices: 73677--73713 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
73667 CATTTTCATG
73677 AGTTTTGAATTTTTTCTTT
1 AGTTTTGAATTTTTTCTTT
73696 AGTTTTGAA-TTTTTCTTT
1 AGTTTTGAATTTTTTCTTT
73714 GAAATTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (19 bp):
AGTTTTGAATTTTTTCTTT
Found at i:73721 original size:19 final size:19
Alignment explanation
Indices: 73680--73721 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
73670 TTTCATGAGT
**
73680 TTTGAATTTTTTCTTTAGT
1 TTTGAATTTTTTCTTTAAA
73699 TTTGAA-TTTTTCTTTGAAA
1 TTTGAATTTTTTCTTT-AAA
73718 TTTG
1 TTTG
73722 CCTATTTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (19 bp):
TTTGAATTTTTTCTTTAAA
Found at i:76384 original size:155 final size:154
Alignment explanation
Indices: 76214--76647 Score: 392
Period size: 157 Copynumber: 2.8 Consensus size: 154
76204 ACCCAGTCTG
** *
76214 CTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTATAATCTTTTTAAGTCCTTTA
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATTTATAATCTTTTTAAGTCCTTTA
* * * *
76279 GGGGTATTAGGTACTTCTACGTTAAAGGTATCCCCTA-AGGGCG-TTTTCTTAATTTTCCTAGAA
66 GGGGTATTAGGTACTTCTACGTCAAAGGTAT-ACCTATAGGG-GATTTTCATAATTTT-CTAAAA
76342 GCAAGTCCTAGGCTATCACCT-GGTTCA
128 GCAAGTCCTAGGCTATCA-CTAGGTTCA
* * * * * * * **
76369 CTTTTATGCCAAAGGTGGGTATATAGGATGGGTTTATCCTA-TTACTTATCATTTTAGTGTCCAC
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATTTA-TAATCTTTTTA-AGTCCTT
* ** * * *
76433 TAGGGTTACCAGGATACTTTTATGTCGAAGGTATACCTATAGGGGTATTTTCATAATTTTCTAAA
64 TAGGGGTATTAGG-TACTTCTACGTCAAAGGTATACCTATAGGGG-ATTTTCATAATTTTCTAAA
* * * * * *
76498 ATCGAGTCCTAGGTTGTCATTAGGTTCG
127 AGCAAGTCCTAGGCTATCACTAGGTTCA
* * * *
76526 CTTTTATGCCAAAAGTGGGTATTTATGATAGGTTCATCCCATCTATAATCTTTTTGAAGTCTTTT
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATTTATAATCTTTTT-AAGTCCTTT
* * * * * * *
76591 AGGGGTATTAGGCACTTTTACATCGAAGATATCCCT-TAGGGGTATTTTTATAATTTT
65 AGGGGTATTAGGTACTTCTACGTCAAAGGTATACCTATAGGGG-ATTTTCATAATTTT
76648 TTTAGAACGA
Statistics
Matches: 220, Mismatches: 50, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
154 3 0.01
155 63 0.29
156 39 0.18
157 100 0.45
158 15 0.07
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (154 bp):
CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATTTATAATCTTTTTAAGTCCTTTA
GGGGTATTAGGTACTTCTACGTCAAAGGTATACCTATAGGGGATTTTCATAATTTTCTAAAAGCA
AGTCCTAGGCTATCACTAGGTTCA
Found at i:76594 original size:157 final size:156
Alignment explanation
Indices: 75953--76647 Score: 513
Period size: 156 Copynumber: 4.5 Consensus size: 156
75943 CGTTTCCTTC
* ** * * *
75953 CTTTTTAAGTCCTTTAGGGGTATCGAGACACTTCTACATCGAAGGTAT-CCCT-TAGGGGCACTT
1 CTTTTTAAGTCCTTTAGGGGTA-CCAGGTACTTTTACGTCGAAGGTATCCCCTATAGGGG--TTT
* * * * * * * * **
76016 TT-GTAATTTTC-AAAATCAAGTCCTACGTTGTCACCGA-CTCCGTTTTTATGCTGAAGGTGGGC
63 TTCATAATTTTCTAGAATCGAGTCCTAGGTTGTCACCTAGGTTCGCTTTTATGCCAAAGGTGGGC
* * * *
76078 ATTTAGGATAGATTTATCCCGTCTCTAAT
128 ATTTAGGATAGGTTCATCCCATCTATAAT
* * * * * * * * *
76107 ATTTTTAAGTCTTTTAAGGTTACCGAGATACTTTCACGTCGAAGGTATCTCCTATAGGTGTTCTT
1 CTTTTTAAGTCCTTTAGGGGTACC-AGGTACTTTTACGTCGAAGGTATCCCCTATAGGGGTTTTT
* * * **
76172 -ATAATTTTTTTAGAATCGAGTCCTAGGTTGTAACCCA-G-TCTGCTTTTATGCTGAAGGTGGGC
65 CATAA-TTTTCTAGAATCGAGTCCTAGGTTGTCACCTAGGTTC-GCTTTTATGCCAAAGGTGGGC
*
76234 ATTTAGGATAGGTTCATCCCATTTATAAT
128 ATTTAGGATAGGTTCATCCCATCTATAAT
** * **
76263 CTTTTTAAGTCCTTTAGGGGTATTAGGTACTTCTACGTTAAAGGTATCCCCTA-AGGGCG-TTTT
1 CTTTTTAAGTCCTTTAGGGGTACCAGGTACTTTTACGTCGAAGGTATCCCCTATAGGG-GTTTTT
* * * * * * *
76326 CTTAATTTTCCTAGAAGCAAGTCCTAGGCTATCACCT-GGTTCACTTTTATGCCAAAGGTGGGTA
65 CATAATTTT-CTAGAATCGAGTCCTAGGTTGTCACCTAGGTTCGCTTTTATGCCAAAGGTGGGCA
* * * * *
76390 TATAGGATGGGTTTATCCTAT-TACTTAT
129 TTTAGGATAGGTTCATCCCATCTA-TAAT
* * ** * * *
76418 CATTTTAGTGTCCACTAGGGTTACCAGGATACTTTTATGTCGAAGGTAT-ACCTATAGGGGTATT
1 CTTTTTA-AGTCCTTTAGGGGTACCAGG-TACTTTTACGTCGAAGGTATCCCCTATAGGGGT-TT
* * * *
76482 TTCATAATTTTCTAAAATCGAGTCCTAGGTTGTCA-TTAGGTTCGCTTTTATGCCAAAAGTGGGT
63 TTCATAATTTTCTAGAATCGAGTCCTAGGTTGTCACCTAGGTTCGCTTTTATGCCAAAGGTGGGC
*
76546 ATTTATGATAGGTTCATCCCATCTATAAT
128 ATTTAGGATAGGTTCATCCCATCTATAAT
* ** * * *
76575 CTTTTTGAAGTCTTTTAGGGGTATTAGGCACTTTTACATCGAAGATAT-CCCT-TAGGGGTATTT
1 CTTTTT-AAGTCCTTTAGGGGTACCAGGTACTTTTACGTCGAAGGTATCCCCTATAGGGGT-TTT
*
76638 TTATAATTTT
64 TCATAATTTT
76648 TTTAGAACGA
Statistics
Matches: 421, Mismatches: 100, Indels: 39
0.75 0.18 0.07
Matches are distributed among these distances:
153 1 0.00
154 55 0.13
155 120 0.29
156 129 0.31
157 101 0.24
158 15 0.04
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (156 bp):
CTTTTTAAGTCCTTTAGGGGTACCAGGTACTTTTACGTCGAAGGTATCCCCTATAGGGGTTTTTC
ATAATTTTCTAGAATCGAGTCCTAGGTTGTCACCTAGGTTCGCTTTTATGCCAAAGGTGGGCATT
TAGGATAGGTTCATCCCATCTATAAT
Found at i:85347 original size:112 final size:113
Alignment explanation
Indices: 85178--85391 Score: 297
Period size: 112 Copynumber: 1.9 Consensus size: 113
85168 ACTTGGAAAG
* * *
85178 AACATCAAATTTGTATAATTTTTAAAGAAATTCACATTTTATACATCCTGATCCATTCGTGCCTA
1 AACATCAAATTTATATAATTCTTAAAGAAATTCACATTTAATACATCCTGATCCATTCGTGCCTA
* * *
85243 AGAAAATGGGGCACGTATCATATGAGTTTTTAAATTTTTGAGCCCAAC
66 AGAAAATGGGGCACGAATCATATCAGTTTTGAAATTTTTGAGCCCAAC
* * *
85291 AACATCAAATTTATATAATTCTT-GAGAAATTCATATTTAATACAT-TTCGATCCATTCGTGCCT
1 AACATCAAATTTATATAATTCTTAAAGAAATTCACATTTAATACATCCT-GATCCATTCGTGCCT
* * *
85354 AGGAAAATGGGGCATGAATCCTATCAGTTTTGAAATTT
65 AAGAAAATGGGGCACGAATCATATCAGTTTTGAAATTT
85392 CTATCCCACC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
111 1 0.01
112 66 0.75
113 21 0.24
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.36
Consensus pattern (113 bp):
AACATCAAATTTATATAATTCTTAAAGAAATTCACATTTAATACATCCTGATCCATTCGTGCCTA
AGAAAATGGGGCACGAATCATATCAGTTTTGAAATTTTTGAGCCCAAC
Found at i:86378 original size:16 final size:16
Alignment explanation
Indices: 86357--86389 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
86347 CAATTGTTGA
86357 TGGAAATTTGAGAAAT
1 TGGAAATTTGAGAAAT
86373 TGGAAATTTGAGAAAT
1 TGGAAATTTGAGAAAT
86389 T
1 T
86390 ATGTGTTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (16 bp):
TGGAAATTTGAGAAAT
Found at i:86647 original size:91 final size:92
Alignment explanation
Indices: 86540--86736 Score: 288
Period size: 91 Copynumber: 2.2 Consensus size: 92
86530 CAGCCCACAC
* * *
86540 ATTCCTAATCATATTCCCTTCACCCAACCATTAGATGGTATTGATGCATCA-CATGCCTGATATC
1 ATTCCTAATCATATTCCCTTCACCCAACCACTAGATGGTATTGATGCATCATAAAGCCTGATATC
86604 CTTAGGGAAAGGATATCCCGACCACTT
66 CTTAGGGAAAGGATATCCCGACCACTT
* * *
86631 ATTCCTAGTCATATTCCCTTTACCCAACCACTAGATGGTATTGATGCATCATAAAGCTTGATATC
1 ATTCCTAATCATATTCCCTTCACCCAACCACTAGATGGTATTGATGCATCATAAAGCCTGATATC
* * * *
86696 CTTGGGGTAAGGATATCCCGACCAATC
66 CTTAGGGAAAGGATATCCCGACCACTT
*
86723 ATTCCCAATCATAT
1 ATTCCTAATCATAT
86737 CTCCTTTGCT
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 48 0.52
92 45 0.48
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (92 bp):
ATTCCTAATCATATTCCCTTCACCCAACCACTAGATGGTATTGATGCATCATAAAGCCTGATATC
CTTAGGGAAAGGATATCCCGACCACTT
Found at i:86743 original size:92 final size:91
Alignment explanation
Indices: 86443--86800 Score: 286
Period size: 92 Copynumber: 4.0 Consensus size: 91
86433 AATCATGAAA
* ** * * * * *
86443 ACCAAACATTCCCAATCATA-TCTTTCTTATCCAATCGCTAGATGATATTGATGCACCACAAAGC
1 ACCAATCATTCCCAATCATATTCCCT-TTACCCAACCACTAGATGGTATTGATGCATCA-AAAGC
* * * * *
86507 CTAATTTCCTTCGGGTAAGGGTGCAGCCC-
64 CTGATATCCTTAGGGTAAGGAT--ATCCCG
* * * * *
86536 A-C-A-CATTCCTAATCATATTCCCTTCACCCAACCATTAGATGGTATTGATGCATCACATGCCT
1 ACCAATCATTCCCAATCATATTCCCTTTACCCAACCACTAGATGGTATTGATGCATCAAAAGCCT
*
86598 GATATCCTTAGGGAAAGGATATCCCG
66 GATATCCTTAGGGTAAGGATATCCCG
* * * * *
86624 ACCACTTATTCCTAGTCATATTCCCTTTACCCAACCACTAGATGGTATTGATGCATCATAAAGCT
1 ACCAATCATTCCCAATCATATTCCCTTTACCCAACCACTAGATGGTATTGATGCATCA-AAAGCC
*
86689 TGATATCCTTGGGGTAAGGATATCCCG
65 TGATATCCTTAGGGTAAGGATATCCCG
* *** *
86716 ACCAATCATTCCCAATCATA-TCTCCTTTGCTTGACCACT--A--GTATTGATGCATCACAAAAC
1 ACCAATCATTCCCAATCATATTC-CCTTTACCCAACCACTAGATGGTATTGATGCATCA-AAAGC
* * *
86776 CTGATTTCCATAGGGCAAGGATATC
64 CTGATATCCTTAGGGTAAGGATATC
86801 TTGACCTTAC
Statistics
Matches: 215, Mismatches: 43, Indels: 19
0.78 0.16 0.07
Matches are distributed among these distances:
87 4 0.02
88 39 0.18
89 21 0.10
90 39 0.18
91 54 0.25
92 57 0.27
93 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (91 bp):
ACCAATCATTCCCAATCATATTCCCTTTACCCAACCACTAGATGGTATTGATGCATCAAAAGCCT
GATATCCTTAGGGTAAGGATATCCCG
Found at i:90328 original size:17 final size:16
Alignment explanation
Indices: 90302--90333 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90292 ATTTATCTTT
90302 GTATGATTTTTAAACA
1 GTATGATTTTTAAACA
90318 GTATGATTTTTAAACA
1 GTATGATTTTTAAACA
90334 TATATTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
GTATGATTTTTAAACA
Found at i:93195 original size:20 final size:20
Alignment explanation
Indices: 93150--93201 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
93140 GTAGCCAAAC
**
93150 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
93170 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
93189 TTGTATCGATACA
1 TTGTATCGATACA
93202 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:97999 original size:86 final size:84
Alignment explanation
Indices: 97887--98115 Score: 255
Period size: 85 Copynumber: 2.7 Consensus size: 84
97877 GGTTCAACTT
* * *
97887 TAGTCAAACCCATTTACTTTCATTTGATGTGATGGTTCAACCTTGGTCAAACTTCTTTTATTTTC
1 TAGTCAAACCC-TTTATTTTCATTTGATGTGATGGTTCAACCCTGGTCAAAC-TCCTTTATTTT-
* *
97952 GTTTGATGTGATGCTTTAGCCC
63 GTTTGACGTGATGCTTTAACCC
* * *
97974 TAGTC-AACCCTTTCATTTTCATTTGACGTGATGGTTTAGCCCTGGTCAAACTCCTTTATTTTGT
1 TAGTCAAACCCTTT-ATTTTCATTTGATGTGATGGTTCAACCCTGGTCAAACTCCTTTATTTTGT
*
98038 TTGACGTGATGGTTTAACCC
65 TTGACGTGATGCTTTAACCC
* * ** * *
98058 TGGTCAAACTCTTT-TTATCTCATTTGATGTGATGGTTCTGCCCTAGTCAAACGCCTTT
1 TAGTCAAACCCTTTATT-T-TCATTTGATGTGATGGTTCAACCCTGGTCAAACTCCTTT
98116 CATCCTCGTT
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
83 2 0.02
84 24 0.20
85 54 0.44
86 37 0.30
87 5 0.04
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (84 bp):
TAGTCAAACCCTTTATTTTCATTTGATGTGATGGTTCAACCCTGGTCAAACTCCTTTATTTTGTT
TGACGTGATGCTTTAACCC
Found at i:98005 original size:42 final size:43
Alignment explanation
Indices: 97887--98359 Score: 254
Period size: 43 Copynumber: 11.0 Consensus size: 43
97877 GGTTCAACTT
* * * * *
97887 TAGTCAAAC-CCATTTACTTTCATTTGATGTGATGGTTCAACCT
1 TAGTCAAACGCC-TTTATTTTCATTTGACGTGATGGTTTAGCCC
* * * * * *
97930 TGGTCAAACTTCTTTTATTTTCGTTTGATGTGATGCTTTAGCCC
1 TAGTCAAAC-GCCTTTATTTTCATTTGACGTGATGGTTTAGCCC
97974 TAGTC-AAC-CCTTTCATTTTCATTTGACGTGATGGTTTAGCCC
1 TAGTCAAACGCCTTT-ATTTTCATTTGACGTGATGGTTTAGCCC
* * * *
98016 TGGTCAAACTCCTTTATTTT-GTTTGACGTGATGGTTTAACCC
1 TAGTCAAACGCCTTTATTTTCATTTGACGTGATGGTTTAGCCC
* * *
98058 TGGTCAAAC-TCTTT-TTATCTCATTTGATGTGATGGTTCT-GCCC
1 TAGTCAAACGCCTTTATT-T-TCATTTGACGTGATGGTT-TAGCCC
** * * *
98101 TAGTCAAACGCCTTTCATCCTCGTTTGATGTGATGGTTCTA-CCT
1 TAGTCAAACGCCTTT-ATTTTCATTTGACGTGATGGTT-TAGCCC
* * * *
98145 TGGTCAAAC-CTTTTTACTTTT-GTTTGACATGATGGTTTAGCCC
1 TAGTCAAACGC-CTTTA-TTTTCATTTGACGTGATGGTTTAGCCC
*** * * * * *
98188 T-GATCAAATTTCTTTCA-TCTCATTTAATGTGATGGTTTGGCTC
1 TAG-TCAAACGCCTTT-ATTTTCATTTGACGTGATGGTTTAGCCC
* * * *
98231 TAGTCAAACTCCTTT-TATCTCATTTGACATGATGGTTTTGCCC
1 TAGTCAAACGCCTTTAT-TTTCATTTGACGTGATGGTTTAGCCC
* * * * * *
98274 TAGTCAAACTCCTTTCACTATCGTTTGACATAATGGTTTAGCCC
1 TAGTCAAACGCCTTT-ATTTTCATTTGACGTGATGGTTTAGCCC
* *** *
98318 TGGTCAAACTTTTTTTATCCTT-ATTTGACGTGATGGTTTAGC
1 TAGTCAAAC-GCCTTTAT-TTTCATTTGACGTGATGGTTTAGC
98360 TCTGGTCGAA
Statistics
Matches: 339, Mismatches: 64, Indels: 53
0.74 0.14 0.12
Matches are distributed among these distances:
40 2 0.01
41 9 0.03
42 64 0.19
43 134 0.40
44 123 0.36
45 6 0.02
46 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.43
Consensus pattern (43 bp):
TAGTCAAACGCCTTTATTTTCATTTGACGTGATGGTTTAGCCC
Found at i:98208 original size:130 final size:126
Alignment explanation
Indices: 97889--98359 Score: 448
Period size: 130 Copynumber: 3.6 Consensus size: 126
97879 TTCAACTTTA
** ** ** * * * * *
97889 GTCAAACCCATTTACTTTCATTTGATGTGATGGTTCAACCTTGGTCAAACTTCTTTTATTTTCGT
1 GTCAAACCTTTTTACTTTTGTTTGACATGATGGTTTAGCCCTGGTCAAACTT-TTTTA-TCTCAT
* *
97954 TTGATGTGATGCTTTAGCCCTAGTC-AACCCTTTCATTTTCATTTGACGTGATGGTTTAGCCCTG
64 TTGATGTGATGGTTTAGCCCTAGTCAAACCCTTTCA-TCTCATTTGACGTGATGGTTTA-CCCTG
* * *
98018 GTCAAA-CTCCTTTA-TTTTGTTTGACGTGATGGTTTAACCCTGGTCAAACTCTTTTTATCTCAT
1 GTCAAACCT-TTTTACTTTTGTTTGACATGATGGTTTAGCCCTGGTCAAACT-TTTTTATCTCAT
* * *
98081 TTGATGTGATGGTTCT-GCCCTAGTCAAACGCCTTTCATCCTCGTTTGATGTGATGGTTCTACCT
64 TTGATGTGATGGTT-TAGCCCTAGTCAAAC-CCTTTCAT-CTCATTTGACGTGATGGTT-TACCC
98145 TG
125 TG
*
98147 GTCAAACCTTTTTACTTTTGTTTGACATGATGGTTTAGCCCTGATCAAA-TTTCTTTCATCTCAT
1 GTCAAACCTTTTTACTTTTGTTTGACATGATGGTTTAGCCCTGGTCAAACTTT-TTT-ATCTCAT
* * * * * * *
98211 TTAATGTGATGGTTTGGCTCTAGTCAAACTCCTTTTATCTCATTTGACATGATGGTTTTGCCCTA
64 TTGATGTGATGGTTTAGCCCTAGTCAAAC-CCTTTCATCTCATTTGACGTGATGG-TTTACCCTG
* * * * * *
98276 GTCAAACTCCTTTCACTATCGTTTGACATAATGGTTTAGCCCTGGTCAAACTTTTTTTATCCTTA
1 GTCAAAC-CTTTTTACTTTTGTTTGACATGATGGTTTAGCCCTGGTCAAAC-TTTTTTAT-CTCA
*
98341 TTTGACGTGATGGTTTAGC
63 TTTGATGTGATGGTTTAGC
98360 TCTGGTCGAA
Statistics
Matches: 287, Mismatches: 38, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
127 26 0.09
128 44 0.15
129 78 0.27
130 114 0.40
131 22 0.08
132 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.43
Consensus pattern (126 bp):
GTCAAACCTTTTTACTTTTGTTTGACATGATGGTTTAGCCCTGGTCAAACTTTTTTATCTCATTT
GATGTGATGGTTTAGCCCTAGTCAAACCCTTTCATCTCATTTGACGTGATGGTTTACCCTG
Found at i:98266 original size:173 final size:173
Alignment explanation
Indices: 97994--98359 Score: 434
Period size: 173 Copynumber: 2.1 Consensus size: 173
97984 TTTCATTTTC
* * ** *
97994 ATTTGACGTGATGGTTTAGCCCTGGTCAAACTCCTTTATTTTGTTTGACGTGATGGTTTAACCCT
1 ATTTGACGTGATGGTTTAGCCCTGATCAAACTCCTTTATCTCATTTAACGTGATGGTTTAACCCT
* * ** *
98059 GGTCAAACTCTTTTTATCTCATTTGATGTGATGGTTCTGCCCTAGTCAAACGCCTTTCA-TCCTC
66 AGTCAAACTCCTTTTATCTCATTTGACATGATGGTTCTGCCCTAGTCAAACGCCTTTCACT-ATC
** * * *
98123 GTTTGATGTGATGGTTCTA-CCTTGGTCAAAC-CTTTTTA-CTTTT
130 GTTTGACATAATGGTT-TAGCCCTGGTCAAACTCTTTTTATC-CTT
* * * * * ** *
98166 GTTTGACATGATGGTTTAGCCCTGATCAAATTTCTTTCATCTCATTTAATGTGATGGTTTGGCTC
1 ATTTGACGTGATGGTTTAGCCCTGATCAAACTCCTTT-ATCTCATTTAACGTGATGGTTTAACCC
* *
98231 TAGTCAAACTCCTTTTATCTCATTTGACATGATGGTTTTGCCCTAGTCAAACTCCTTTCACTATC
65 TAGTCAAACTCCTTTTATCTCATTTGACATGATGGTTCTGCCCTAGTCAAACGCCTTTCACTATC
*
98296 GTTTGACATAATGGTTTAGCCCTGGTCAAACTTTTTTTATCCTT
130 GTTTGACATAATGGTTTAGCCCTGGTCAAACTCTTTTTATCCTT
98340 ATTTGACGTGATGGTTTAGC
1 ATTTGACGTGATGGTTTAGC
98360 TCTGGTCGAA
Statistics
Matches: 161, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
172 34 0.21
173 99 0.61
174 27 0.17
175 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (173 bp):
ATTTGACGTGATGGTTTAGCCCTGATCAAACTCCTTTATCTCATTTAACGTGATGGTTTAACCCT
AGTCAAACTCCTTTTATCTCATTTGACATGATGGTTCTGCCCTAGTCAAACGCCTTTCACTATCG
TTTGACATAATGGTTTAGCCCTGGTCAAACTCTTTTTATCCTT
Found at i:98563 original size:85 final size:85
Alignment explanation
Indices: 98474--98633 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 85
98464 GCTTAGTCTC
* * * * * **
98474 GAGTAAATCTTTTTATTATTCATTGACTTGTC-GATTTAATCTTGGTCAACCTTTTTATTTTTTG
1 GAGTAAATCTTTTTATCATTCATTGACTTATCAG-TTCAATCCTGGTCAACCATTTTATCCTTTG
98538 CTTACCTGTCGACTCATTCTG
65 CTTACCTGTCGACTCATTCTG
* **
98559 GAGTAAATCTTTTTATCCTTTGTTGACTTATCAGTTCAATCCTGGTCAACCATTTTATCCTTTGC
1 GAGTAAATCTTTTTATCATTCATTGACTTATCAGTTCAATCCTGGTCAACCATTTTATCCTTTGC
*
98624 TTACTTGTCG
66 TTACCTGTCG
98634 GCTTAGTCTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
85 62 0.98
86 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (85 bp):
GAGTAAATCTTTTTATCATTCATTGACTTATCAGTTCAATCCTGGTCAACCATTTTATCCTTTGC
TTACCTGTCGACTCATTCTG
Found at i:100018 original size:166 final size:166
Alignment explanation
Indices: 99834--100258 Score: 500
Period size: 153 Copynumber: 2.6 Consensus size: 166
99824 GTTTTCACTA
** * *
99834 GTTTATAAATTTTAAAATTTATCAAATATTATTACTTAATTCACACTAAATTATTTTTGAAAAAT
1 GTTTATATTTTTTAAAATTTATCAAATATTATTATTTAATTCACATTAAATTATTTTTGAAAAAT
* *
99899 TCATTTATTTTTATTAATTTTTCATTTTTTCTTTGAAATTTCTC-GATTTTTGAAATACAAAGTT
66 TCATTTATTTTTATTAATTTTTCATTTTTTCTTTGAAATTTCTCTGATTATCGAAATACAAAGTT
*
99963 TCCTACTTCATAAATATTTTCAAGGGAATTTTTCTTG
131 TCCTACTTCATAAATATTTT-AAGGGAATTTTTCTTC
* * * *
100000 GTTTATATTTTTTAAAATTCATCAAATAGTATTATTTAATTCACATTAAATCAGTTTTGAAAAAT
1 GTTTATATTTTTTAAAATTTATCAAATATTATTATTTAATTCACATTAAATTATTTTTGAAAAAT
* * *
100065 TC----A----T-TT-A-TTTTCA-TTTTTCTTTGAAA-TTCTCTTATTATCGAAATATAGAGTT
66 TCATTTATTTTTATTAATTTTTCATTTTTTCTTTGAAATTTCTCTGATTATCGAAATACAAAGTT
* ** * **
100117 TCTTACTTTGTAAATGTTTTTGGGGAATTTTTCTTC
131 TCCTACTTCATAAATATTTTAAGGGAATTTTTCTTC
* * *
100153 GTTTATATTTTTTAAAATTTATCAAATATCATCATTTAATTCATATTAAATTATTTTTGAAAAAT
1 GTTTATATTTTTTAAAATTTATCAAATATTATTATTTAATTCACATTAAATTATTTTTGAAAAAT
* * *
100218 TCATTTATTTTCATGAGTTTTTCATTTTTTTCTTTGAAATT
66 TCATTTATTTTTATTAATTTTTCA-TTTTTTCTTTGAAATT
100259 CTTTTGTTTT
Statistics
Matches: 214, Mismatches: 30, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
153 78 0.36
154 44 0.21
155 6 0.03
156 1 0.00
157 3 0.01
158 1 0.00
162 2 0.01
164 6 0.03
166 72 0.34
167 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (166 bp):
GTTTATATTTTTTAAAATTTATCAAATATTATTATTTAATTCACATTAAATTATTTTTGAAAAAT
TCATTTATTTTTATTAATTTTTCATTTTTTCTTTGAAATTTCTCTGATTATCGAAATACAAAGTT
TCCTACTTCATAAATATTTTAAGGGAATTTTTCTTC
Found at i:100909 original size:25 final size:24
Alignment explanation
Indices: 100862--100910 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
100852 TTTGGCAAGG
100862 GAGAAAAAAAGAGAAAAAAAGAAA
1 GAGAAAAAAAGAGAAAAAAAGAAA
*
100886 GAGAAAATAAG-GACAAAATAAGAAA
1 GAGAAAAAAAGAGA-AAAA-AAGAAA
100911 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 14 0.64
25 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (24 bp):
GAGAAAAAAAGAGAAAAAAAGAAA
Found at i:110014 original size:21 final size:21
Alignment explanation
Indices: 109964--110024 Score: 90
Period size: 19 Copynumber: 3.0 Consensus size: 21
109954 GCTTTGTATC
109964 GACAAATTGTATCGATACATG
1 GACAAATTGTATCGATACATG
**
109985 TTC--ATTGTATCGATACATG
1 GACAAATTGTATCGATACATG
110004 GACAAATTGTATCGATACATG
1 GACAAATTGTATCGATACATG
110025 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 17 0.50
21 17 0.50
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (21 bp):
GACAAATTGTATCGATACATG
Found at i:118380 original size:13 final size:13
Alignment explanation
Indices: 118362--118400 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
118352 ACATTTTTCT
118362 TTGTATCGATACA
1 TTGTATCGATACA
118375 TTGTATCGATACA
1 TTGTATCGATACA
*
118388 CTGTATCGATACA
1 TTGTATCGATACA
118401 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:118564 original size:20 final size:20
Alignment explanation
Indices: 118521--118566 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
118511 AAATCTTTTG
118521 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
118542 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
118562 CAAAA
1 CAAAA
118567 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:123375 original size:19 final size:19
Alignment explanation
Indices: 123351--123405 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
123341 AATTCAACAA
123351 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
123370 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
123389 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
123406 TTAGCTACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:123463 original size:13 final size:13
Alignment explanation
Indices: 123445--123470 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
123435 CATTTTTTTG
123445 TGTATCGATACAT
1 TGTATCGATACAT
123458 TGTATCGATACAT
1 TGTATCGATACAT
123471 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:123889 original size:13 final size:13
Alignment explanation
Indices: 123871--123896 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
123861 TACACCAAGT
123871 ATGTATCGATACA
1 ATGTATCGATACA
123884 ATGTATCGATACA
1 ATGTATCGATACA
123897 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:123894 original size:32 final size:33
Alignment explanation
Indices: 123853--123916 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
123843 TAGCCAAACT
* **
123853 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
123885 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
123917 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:124831 original size:272 final size:272
Alignment explanation
Indices: 124345--124886 Score: 1066
Period size: 272 Copynumber: 2.0 Consensus size: 272
124335 TATAATTCTC
124345 TAAGTGATTGAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAGAGAGAGGTTTCTATCTTAG
1 TAAGTGATTGAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAGAGAGAGGTTTCTATCTTAG
*
124410 CCTTGAAAGATAGTGTTGTAAGGTTATACCTTAGCCTCAAAGGTAAACAATTCGGTTAGTGAATT
66 CCTTGAAAGATAGTGTTGTAAGGTTATACCTTAGCCTCAAAAGTAAACAATTCGGTTAGTGAATT
124475 GTGGTATACTTGGCAAGGAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTC
131 GTGGTATACTTGGCAAGGAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTC
124540 TATAAATCTCGTGTTTGATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAA
196 TATAAATCTCGTGTTTGATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAA
124605 GTTTTATTAAGA
261 GTTTTATTAAGA
124617 TAAGTGATTGAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAGAGAGAGGTTTCTATCTTAG
1 TAAGTGATTGAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAGAGAGAGGTTTCTATCTTAG
124682 CCTTGAAAGATAGTGTTGTAAGGTTATACCTTAGCCTCAAAAGTAAACAATTCGGTTAGTGAATT
66 CCTTGAAAGATAGTGTTGTAAGGTTATACCTTAGCCTCAAAAGTAAACAATTCGGTTAGTGAATT
*
124747 GTGGTATACTTGGCAAGGAAGTGCCTAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTC
131 GTGGTATACTTGGCAAGGAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTC
124812 TATAAATCTCGTGTTTGATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAA
196 TATAAATCTCGTGTTTGATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAA
124877 GTTTTATTAA
261 GTTTTATTAA
124887 TTTTTCATTA
Statistics
Matches: 268, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
272 268 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (272 bp):
TAAGTGATTGAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGAGAGAGAGGTTTCTATCTTAG
CCTTGAAAGATAGTGTTGTAAGGTTATACCTTAGCCTCAAAAGTAAACAATTCGGTTAGTGAATT
GTGGTATACTTGGCAAGGAAGTGCCAAGGAGAGAGGACGTAGGTGCCGTGTTTGGACCGAACCTC
TATAAATCTCGTGTTTGATCTTTCTATCCCTTACTCTCTTTTATTTATCCATTGCTTACGAAAAA
GTTTTATTAAGA
Found at i:127806 original size:13 final size:13
Alignment explanation
Indices: 127788--127812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127778 TTTTCCAGAT
127788 TGTATCGATACAA
1 TGTATCGATACAA
127801 TGTATCGATACA
1 TGTATCGATACA
127813 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:129782 original size:13 final size:13
Alignment explanation
Indices: 129764--129789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
129754 TACACCAAGT
129764 ATGTATCGATACA
1 ATGTATCGATACA
129777 ATGTATCGATACA
1 ATGTATCGATACA
129790 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:129787 original size:32 final size:33
Alignment explanation
Indices: 129746--129809 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
129736 TAGCCAAACT
* **
129746 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
129778 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
129810 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:132992 original size:51 final size:51
Alignment explanation
Indices: 132916--133302 Score: 196
Period size: 52 Copynumber: 7.4 Consensus size: 51
132906 AATTCTCCGC
* * * * *
132916 AATCGGGGATATTTCATCTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTAT
* * * * *
132967 AATCGGGGATACTCCAACTCTGATTTTATTTTAAAAAAAACACAAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTT---CAAAACACCAATTTTCT-AT
* ** * * * ***
133021 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAA-CCCCGTTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC---AAAACACCAATTTTC--TAT
** * * ***
133074 TTTCGAGGGGATACTCCAACCCCTG-CTTTATTCTT-AAAATATTGA-TTTCTCAT
1 AATC--GGGGATACTCCAACCCC-GATTTTATT-TTCAAAACACCAATTTTCT-AT
* * * *
133127 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAA-TTTTCTAT
* *
133179 AATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTAT
* * * * * *
133231 AATCGGGGATACTCCAACTCTGGTTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCT-AT
*
133284 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
133303 TCGTTATTTC
Statistics
Matches: 250, Mismatches: 61, Indels: 48
0.70 0.17 0.13
Matches are distributed among these distances:
49 1 0.00
50 2 0.01
51 60 0.24
52 80 0.32
53 45 0.18
54 39 0.16
55 17 0.07
56 1 0.00
57 4 0.02
58 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTAT
Found at i:133028 original size:54 final size:51
Alignment explanation
Indices: 132915--133038 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 51
132905 CAATTCTCCG
* * * * *
132915 CAATCGGGGATATTTCATCTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTTAAAAACACAAATTTTCTA
* *
132966 TAATCGGGGATACTCCAACTCTGATTTTATTTTAAAAAAAACACAAATTTT-TCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTT---AAAAACACAAATTTTCT-A
133020 CAATCGGGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
133039 CCCGTTAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
51 28 0.46
53 1 0.02
54 32 0.52
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (51 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTTAAAAACACAAATTTTCTA
Found at i:133092 original size:28 final size:27
Alignment explanation
Indices: 133022--133096 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
133012 ATTTTTCACA
133022 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
133049 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
133075 TTCGAGGGGATACTCCAACCCC
1 ATC--GGGGATACTCCAACCCC
133097 TGCTTTATTC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.52
28 17 0.39
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:133294 original size:53 final size:52
Alignment explanation
Indices: 133127--133302 Score: 221
Period size: 52 Copynumber: 3.4 Consensus size: 52
133117 GATTTCTCAT
* * *
133127 AATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTTCAC
* *
133179 AATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTT--T
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTT--TTCAC
* * * *
133231 AATCGGGGATACTCCAACTCTGGTTTTATTTCCAAAAACACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACACCAATTTTTTCAC
*
133284 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
133303 TCGTTATTTC
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 2 0.02
52 72 0.68
53 31 0.29
54 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTTCAC
Found at i:133336 original size:28 final size:31
Alignment explanation
Indices: 133285--133359 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 31
133275 TTTTTTCACA
* *
133285 ATCGAGGATACTCCAA-CCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCTCGTTACCTTCG
133313 ATCGGGGATACTCCAACCCT-GTTACCTTCG
1 ATCGGGGATACTCCAACCCTCGTTACCTTCG
133343 A--GGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
133360 CGACTTCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 35 0.83
29 6 0.14
30 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (31 bp):
ATCGGGGATACTCCAACCCTCGTTACCTTCG
Found at i:133384 original size:264 final size:263
Alignment explanation
Indices: 132915--133412 Score: 757
Period size: 264 Copynumber: 1.9 Consensus size: 263
132905 CAATTCTCCG
* * * * *
132915 CAATCGGGGATATTTCATCTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
* *
132980 CCAACTCTGATTTTATTTTAAAAAAAACACAAATTTTTCACAATCGGGGATACTCCAACCCCGTT
66 CCAACTCTGATTTTATTTCAAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
** * **
133045 AATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTGCTTTATTCTTA
131 AATCATCGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCTGCTTCATTCCCA
133110 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
196 AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
133175 CCA
261 CCA
* *
133178 CAATCGGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCTTTAATCGGGGATAC
1 CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATAC
* * * * *
133243 TCCAACTCTGGTTTTATTTCCAAAAACAC-CAATTTTTTCACAATCGAGGATACTCCAACCTCGT
65 TCCAACTCTGATTTTATTTCAAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGT
* *
133307 TATTTCATCGGGGATACTCCAACCCTGTTACCTTCGAGGGGATACTCCAACCCC-GACTTCATTC
130 TA-ATCATCGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCTG-CTTCATTC
*
133371 CCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
193 CCAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
133413 TTATTTTCGA
Statistics
Matches: 210, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
263 77 0.37
264 133 0.63
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (263 bp):
CAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACT
CCAACTCTGATTTTATTTCAAAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCCGTT
AATCATCGGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCTGCTTCATTCCCA
AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGATTTTATTGCTAAAACACTAATTTTT
CCA
Found at i:133464 original size:79 final size:79
Alignment explanation
Indices: 133315--133519 Score: 232
Period size: 79 Copynumber: 2.6 Consensus size: 79
133305 GTTATTTCAT
* **
133315 CGGGGATACTCCAACCCTGTTACCTTCGAGGGGATACTCCAACCCCGACTTCATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTCATTCCCAAAATAT
* * *
133380 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** ** *
133394 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTCATTCCCAAAAT-A
133458 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * *
133473 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
133520 TTATTATCTC
Statistics
Matches: 105, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 3 0.03
79 102 0.97
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTCATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:145929 original size:1 final size:1
Alignment explanation
Indices: 145925--145998 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
145915 ATTCTTTTTC
* * * * * * * * *
145925 AAAAAAAAAAACACAAAAAAAAACAACAAAAAAAAAAAACAAAACAAACAAAACAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
145990 AAAGAAAAA
1 AAAAAAAAA
145999 TCTGCTTAAG
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:145963 original size:31 final size:30
Alignment explanation
Indices: 145925--145998 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
145915 ATTCTTTTTC
*
145925 AAAAAAAAAAACACAAAAAAAA-ACAACAAA
1 AAAAAAAAAAAAACAAAAAAAACA-AACAAA
*
145955 AAAAAAAAACAAAACAAACAAAACAAACAAA
1 AAAAAAAAA-AAAACAAAAAAAACAAACAAA
*
145986 AAAAAAAGAAAAA
1 AAAAAAAAAAAAA
145999 TCTGCTTAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 13 0.33
31 25 0.64
32 1 0.03
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAAAAACAAAAAAAACAAACAAA
Found at i:145990 original size:13 final size:13
Alignment explanation
Indices: 145924--145991 Score: 91
Period size: 14 Copynumber: 5.0 Consensus size: 13
145914 CATTCTTTTT
145924 CAAAAAAAAAAACA
1 CAAAAAAAAAAA-A
*
145938 CAAAAAAAAACAA
1 CAAAAAAAAAAAA
145951 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
*
145964 CAAAACAAACAAAA
1 CAAAA-AAAAAAAA
145978 CAAACAAAAAAAAA
1 CAAA-AAAAAAAAA
145992 AGAAAAATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
13 18 0.38
14 29 0.60
15 1 0.02
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:145998 original size:9 final size:9
Alignment explanation
Indices: 145928--145990 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
145918 CTTTTTCAAA
145928 AAAAAAAAC
1 AAAAAAAAC
145937 ACAAAAAAA-
1 A-AAAAAAAC
145946 AACAACAAAA-
1 AA-AA-AAAAC
145956 AAAAAAAAC
1 AAAAAAAAC
*
145965 AAAACAAAC
1 AAAAAAAAC
*
145974 AAAACAAAC
1 AAAAAAAAC
145983 AAAAAAAA
1 AAAAAAAA
145991 AAGAAAAATC
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
8 5 0.10
9 30 0.62
10 13 0.27
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:147166 original size:59 final size:59
Alignment explanation
Indices: 146986--147887 Score: 1225
Period size: 59 Copynumber: 15.5 Consensus size: 59
146976 AGCAGGACAC
* * **
146986 CTTTTAAAGCCCACACAAGATGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCCC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCGGGACGCCTT-TT
**
147047 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
147107 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
147166 CTTTTAAAACCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
147225 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
147284 CTTTTAAAACCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
147343 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
147402 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * *
147461 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTGTGCTCAAAGAGCGGGACACCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
147520 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * * * *
147579 CTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
147638 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGAC-CC----
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
** * * * ** * * *
147694 CTTTCGAAGCCCACAAAATTTGGTGTCATTTTTCAGTCCCCAAAGAGCAGGACACC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
** * *
147753 C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---T
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
* *
147806 C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
147863 C----AAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC
147888 TTTTTACTCC
Statistics
Matches: 775, Mismatches: 52, Indels: 34
0.90 0.06 0.04
Matches are distributed among these distances:
53 2 0.00
54 4 0.01
55 149 0.19
56 8 0.01
57 2 0.00
59 482 0.62
60 54 0.07
61 72 0.09
62 2 0.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (59 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
Found at i:148667 original size:19 final size:19
Alignment explanation
Indices: 148643--148710 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
148633 AATTCAACAA
148643 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
148662 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
148677 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
148694 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
148711 TTAGCTACGG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:148682 original size:13 final size:13
Alignment explanation
Indices: 148664--148688 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
148654 ACATAAGTTT
148664 TGTATCGATACAA
1 TGTATCGATACAA
148677 TGTATCGATACA
1 TGTATCGATACA
148689 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:148686 original size:32 final size:32
Alignment explanation
Indices: 148645--148707 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
148635 TTCAACAATT
*
148645 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
148677 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
148708 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:148768 original size:13 final size:13
Alignment explanation
Indices: 148750--148776 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
148740 CATATTTTTG
148750 TGTATCGATACAT
1 TGTATCGATACAT
148763 TGTATCGATACAT
1 TGTATCGATACAT
148776 T
1 T
148777 TGGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:151262 original size:27 final size:28
Alignment explanation
Indices: 151228--151302 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
151218 ATTTTTCACA
*
151228 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCATTATATC
*
151255 ATCGGGGATACTCCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCATTATATC
***
151283 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
151303 TGCTTTATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATATC
Found at i:151355 original size:53 final size:52
Alignment explanation
Indices: 151286--151511 Score: 185
Period size: 53 Copynumber: 4.3 Consensus size: 52
151276 TTATTTCCGA
* * * * *
151286 GGGGATACTCCAACCCCTGCTTTATTCTTAAAATATTGA-TTTTTCTCATAATC
1 GGGGATACTCCAACCCC-GATTTATTCTTAAAACACTAATTTTTTC-CACAATC
151339 GGGGATACTCCAACCCCGATTTTATTGC-TAAAACACTAATTTTTTCCACAATC
1 GGGGATACTCCAACCCCGA-TTTATT-CTTAAAACACTAATTTTTTCCACAATC
* * * * *
151392 GGGGATACTCCAACCCCGATTTATTTTTAAAACACCAATTTTCCTT-TA-TAGC
1 GGGGATACTCCAACCCCGATTTATTCTTAAAACACTAATTTT--TTCCACAATC
* * ** *
151444 GGGGATACTCCCAGCTCCGATTTTATTTCCAAAAACACCAA-TTTTT-CACAATC
1 GGGGATACT-CCAACCCCGA-TTTA-TTCTTAAAACACTAATTTTTTCCACAATC
*
151497 GAGGATACTCCAACC
1 GGGGATACTCCAACC
151512 TCGTTATTTC
Statistics
Matches: 142, Mismatches: 21, Indels: 21
0.77 0.11 0.11
Matches are distributed among these distances:
52 39 0.27
53 75 0.53
54 16 0.11
55 12 0.08
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTATTCTTAAAACACTAATTTTTTCCACAATC
Found at i:151522 original size:31 final size:28
Alignment explanation
Indices: 151494--151570 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
151484 ATTTTTCACA
*
151494 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
151522 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
151550 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
151571 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Done.